VIM
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Summary
VIM (vimentin, HGNC:12692) is a protein-coding gene on chromosome 10p13, encoding Vimentin (P08670). Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells.
This gene encodes a type III intermediate filament protein. Intermediate filaments, along with microtubules and actin microfilaments, make up the cytoskeleton. The encoded protein is responsible for maintaining cell shape and integrity of the cytoplasm, and stabilizing cytoskeletal interactions. This protein is involved in neuritogenesis and cholesterol transport and functions as an organizer of a number of other critical proteins involved in cell attachment, migration, and signaling. Bacterial and viral pathogens have been shown to attach to this protein on the host cell surface. Mutations in this gene are associated with congenital cataracts in human patients.
Source: NCBI Gene 7431 — RefSeq curated summary.
At a glance
- Gene–disease (curated): cataract (Definitive, GenCC) — +2 more curated relationships
- GWAS associations: 6
- Clinical variants (ClinVar): 135 total — 1 likely-pathogenic
- Phenotypes (HPO): 5
- Druggable target: yes
- MANE Select transcript:
NM_003380
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:12692 |
| Approved symbol | VIM |
| Name | vimentin |
| Location | 10p13 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000026025 |
| Ensembl biotype | protein_coding |
| OMIM | 193060 |
| Entrez | 7431 |
Gene structure
Transcript identifiers
Ensembl transcripts: 17 — 11 protein_coding, 2 retained_intron, 2 nonsense_mediated_decay, 2 protein_coding_CDS_not_defined
ENST00000224237, ENST00000421459, ENST00000469543, ENST00000478746, ENST00000485947, ENST00000487938, ENST00000495528, ENST00000497849, ENST00000544301, ENST00000637053, ENST00000881961, ENST00000881962, ENST00000881963, ENST00000946784, ENST00000946785, ENST00000946786, ENST00000946787
RefSeq mRNA: 1 — MANE Select: NM_003380
NM_003380
CCDS: CCDS7120
Canonical transcript exons
ENST00000544301 — 10 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000692805 | 17233587 | 17233682 |
| ENSE00000692812 | 17234693 | 17234818 |
| ENSE00000815998 | 17236294 | 17236379 |
| ENSE00001121153 | 17235846 | 17235889 |
| ENSE00001270949 | 17235169 | 17235389 |
| ENSE00001270958 | 17230650 | 17230710 |
| ENSE00001942703 | 17228241 | 17228524 |
| ENSE00002284410 | 17229276 | 17229985 |
| ENSE00003614198 | 17233770 | 17233931 |
| ENSE00003647967 | 17237230 | 17237593 |
Expression profiles
Bgee: expression breadth ubiquitous, 307 present calls, max score 99.99.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 2467.6537 / max 125601.9960, expressed in 1738 samples.
FANTOM5 promoters (13 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 104054 | 2442.2995 | 1693 |
| 104057 | 7.6571 | 1454 |
| 104050 | 6.6265 | 1417 |
| 104073 | 5.2122 | 1240 |
| 104053 | 1.6280 | 818 |
| 104046 | 1.4872 | 412 |
| 104052 | 0.9798 | 522 |
| 104051 | 0.7548 | 191 |
| 205739 | 0.4312 | 189 |
| 104055 | 0.1770 | 84 |
Top tissues by expression
312 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| ventricular zone | UBERON:0003053 | 99.99 | gold quality |
| descending thoracic aorta | UBERON:0002345 | 99.97 | gold quality |
| right coronary artery | UBERON:0001625 | 99.96 | gold quality |
| blood vessel layer | UBERON:0004797 | 99.96 | gold quality |
| layer of synovial tissue | UBERON:0007616 | 99.96 | gold quality |
| dorsal root ganglion | UBERON:0000044 | 99.95 | gold quality |
| urethra | UBERON:0000057 | 99.95 | gold quality |
| aorta | UBERON:0000947 | 99.95 | gold quality |
| nerve | UBERON:0001021 | 99.95 | gold quality |
| tibial nerve | UBERON:0001323 | 99.95 | gold quality |
| ascending aorta | UBERON:0001496 | 99.95 | gold quality |
| thoracic aorta | UBERON:0001515 | 99.95 | gold quality |
| artery | UBERON:0001637 | 99.95 | gold quality |
| trigeminal ganglion | UBERON:0001675 | 99.95 | gold quality |
| popliteal artery | UBERON:0002250 | 99.95 | gold quality |
| decidua | UBERON:0002450 | 99.95 | gold quality |
| tibial artery | UBERON:0007610 | 99.95 | gold quality |
| synovial joint | UBERON:0002217 | 99.94 | gold quality |
| olfactory bulb | UBERON:0002264 | 99.94 | gold quality |
| calcaneal tendon | UBERON:0003701 | 99.94 | gold quality |
| coronary artery | UBERON:0001621 | 99.93 | gold quality |
| left coronary artery | UBERON:0001626 | 99.93 | gold quality |
| lower lobe of lung | UBERON:0008949 | 99.91 | gold quality |
| stromal cell of endometrium | CL:0002255 | 99.90 | gold quality |
| parietal pleura | UBERON:0002400 | 99.90 | gold quality |
| tendon of biceps brachii | UBERON:0008188 | 99.90 | gold quality |
| right ovary | UBERON:0002118 | 99.89 | gold quality |
| left ovary | UBERON:0002119 | 99.89 | gold quality |
| peritoneum | UBERON:0002358 | 99.89 | gold quality |
| cartilage tissue | UBERON:0002418 | 99.89 | gold quality |
Single-cell (SCXA)
Detected in 90 experiment(s), a significant marker in 62.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-HCAD-36 | yes | 17123.00 |
| E-MTAB-7407 | yes | 16811.04 |
| E-GEOD-137537 | yes | 14012.52 |
| E-MTAB-8142 | yes | 13936.54 |
| E-GEOD-135922 | yes | 12559.53 |
| E-CURD-79 | yes | 10585.91 |
| E-MTAB-9154 | yes | 8573.37 |
| E-MTAB-8205 | yes | 8235.09 |
| E-GEOD-134144 | yes | 8030.79 |
| E-MTAB-9841 | yes | 7971.21 |
| E-MTAB-10596 | yes | 7907.32 |
| E-MTAB-10855 | yes | 7727.88 |
| E-GEOD-124263 | yes | 7715.33 |
| E-CURD-112 | yes | 7675.41 |
| E-MTAB-9906 | yes | 7616.13 |
Regulation
Is transcription factor: yes
Downstream targets (CollecTRI)
1 targets.
| Target | Regulation |
|---|---|
| PLVAP | Activation |
Upstream regulators (CollecTRI, top): AP1, AR, ATF4, CDK9, CTNNB1, CUX1, CXXC1, ERG, ESR1, ETV4, EZH2, FOS, FOXC1, GLI1, HDGF, HEXIM1, HIF1A, HIPK2, HMGA2, HNF4A, HOXA5, HOXA7, HSF4, IRF6, JDP2, JUN, KLF4, KLF8, LEF1, MARK1, MTA1, MYB, NFKB1, NFKB, OVOL2, PARP1, PAWR, PBX1, POLR2A, RBMS3
miRNA regulators (miRDB)
50 targeting VIM, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-30A-5P | 100.00 | 76.31 | 3233 |
| HSA-MIR-30B-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30C-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30D-5P | 100.00 | 76.32 | 3233 |
| HSA-MIR-30E-5P | 100.00 | 76.32 | 3242 |
| HSA-MIR-548N | 99.98 | 71.94 | 4170 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-548AN | 99.97 | 70.91 | 2817 |
| HSA-MIR-3658 | 99.96 | 73.87 | 4379 |
| HSA-MIR-3686 | 99.90 | 70.53 | 2432 |
| HSA-MIR-124-3P | 99.89 | 73.74 | 3043 |
| HSA-MIR-506-3P | 99.89 | 73.55 | 3057 |
| HSA-MIR-548E-5P | 99.89 | 72.73 | 4486 |
| HSA-MIR-548AR-3P | 99.85 | 71.26 | 3889 |
| HSA-MIR-4799-5P | 99.82 | 70.60 | 2663 |
| HSA-MIR-548AZ-3P | 99.82 | 70.56 | 3549 |
| HSA-MIR-548BC | 99.82 | 70.61 | 3524 |
| HSA-MIR-548E-3P | 99.82 | 70.59 | 3514 |
| HSA-MIR-548F-3P | 99.82 | 70.59 | 3540 |
| HSA-MIR-320A-3P | 99.77 | 69.73 | 2107 |
| HSA-MIR-320B | 99.77 | 69.73 | 2107 |
| HSA-MIR-320C | 99.77 | 69.73 | 2107 |
| HSA-MIR-320D | 99.77 | 69.73 | 2107 |
| HSA-MIR-4429 | 99.77 | 69.62 | 2111 |
| HSA-MIR-548A-3P | 99.76 | 70.58 | 3524 |
| HSA-MIR-875-3P | 99.63 | 69.47 | 2548 |
| HSA-MIR-1287-3P | 99.63 | 66.93 | 492 |
| HSA-MIR-4328 | 99.57 | 71.06 | 4094 |
| HSA-MIR-7844-5P | 99.55 | 68.56 | 1428 |
Literature-anchored findings (GeneRIF, showing 40)
- These findings suggest that platelet vimentin may regulate fibrinolysis in plasma and thrombi by binding platelet-derived Vn.PAI-1 complexes. (PMID:11744725)
- association with MICAL, a novel CasL interacting molecule (PMID:11827972)
- Vimentin expression correlates with the cytoplasmic localization of wild-type p53 in human primary glioblastoma. (PMID:12084347)
- Menin’s interaction with glial fibrillary acidic protein and vimentin suggests a role for the intermediate filament network in regulating menin activity. (PMID:12169273)
- Results describe the asymmetric distribution of vimentin in the human sperm head. (PMID:12194205)
- expression correlated with motility of prostate carcinoma cells, poor cell differentiation, and presence of bone metastasis (PMID:12210485)
- specific interaction of the periplakin linker domain with keratin 8 and vimentin (PMID:12366696)
- The 3’ untranslated region of human vimentin mRNA binds protein complexes containing eEF-1gamma and HAX-1. (PMID:12466525)
- It is secreted by activated monocyte-derived macrophages (PMID:12483219)
- vimentin expression contributes to the invasive phenotype in androgen-independent prostate cancer but cannot confer it alone. (PMID:12727854)
- The vimentin promoter is a target of the beta-catenin/TCF pathway and strongly suggest an implication of this regulation in epithelial cell migration/invasion in breast cancer. (PMID:12750294)
- role of mitogen-activated protein kinase-activated protein kinase-2 phosphorylation in retaining assembly capacity (PMID:12761892)
- vimentin, in conjunction with low molecular weight heparan sulfate proteoglycans, contributes to the enhanced binding of human group IIA PLA2 to apoptotic T cells (PMID:12829607)
- High MW vimentin was formed after the digestion of vimentin by caspase-3 but not caspase-8. It acted as an autoantigen to form anti-vimentin autoantibody in vivo. (PMID:12906105)
- findings implicate reduced vimentin in the conversion of these tumorigenic prostate epithelial cells into slow growing, less aggressive cells (PMID:14595690)
- study of human vimentin rod 1 structure and the sequencing of assembly steps in intermediate filament formation (PMID:15231822)
- It is unlikely that ependymal vimentin is directly involved in the pathogenesis of Chiari II malformation, but may reflect a secondary upregulation due to defective expression of another gene. (PMID:15255035)
- Data suggest that the PAL-E antibody defines secretion of vimentin as a molecular distinction among endothelial cells and exposes a novel, extracellular role for vimentin in the blood vasculature. (PMID:15456890)
- examination of mutation the LNDR to LNDS motif in vimentin to examine role in epidermolysis bullosa simplex (PMID:15556930)
- Interacts with alpha2beta1-enriched focal adhesions and this association is lost after prolonged adhesion of endothelial cells to collagen. (PMID:15777792)
- Results indicate that protein kinase C epsilon-mediated phosphorylation of vimentin is a key process in integrin traffic through the cell. (PMID:16270034)
- Kidney recipients from non-heart-beating donors showed higher levels of anti-vimentin antibodies than heart-beating donors. (PMID:16298568)
- Apoptotic neutrophils express vimentin on their surface; these cells may participate in the development of autoantibodies directed against cytoskeletal proteins, a condition frequently reported in several inflammatory diseases. (PMID:16365157)
- All polyps were immunohistochemically positive for vimentin. (PMID:16487365)
- regulation of vimentin is controlled by SIP1 in breast neoplasms (PMID:16568083)
- isolated & identified vimentin as the major skeletal-muscle group A streptococcus (GAS)-binding protein; vimentin expression was up-regulated on injured skeletal-muscle cells in vitro and was expressed in muscle tissues from a patient with GAS myonecrosis (PMID:16703512)
- actin and vimentin filaments can interact directly through the tail domain of vimentin (PMID:16901892)
- Data show that the architecture of the vimentin cytoskeleton is modified by perturbation of the GTPase ARF1. (PMID:16912072)
- Increased vimentin expression was found in pseudomyxoma peritonei. (PMID:17031402)
- unit-length filaments appears to be a dynamic and a relatively loosely packed structure with a roughly even mass distribution over its cross-section (PMID:17050693)
- Vimentin is involved in binding of NKp46 to M. tuberculosis H37Ra-infected mononuclear phagocytes. (PMID:17056548)
- The regulatory protease factor Xa is able to cleave IbeA between R297 and K298 residues, and this cleavage abolishes the IbeA-vimentin interaction. (PMID:17083913)
- Vimentin filaments in cross-section exhibit predominantly a four-stranded protofibrilar organization with a right-handed supertwist with a helical pitch of about 96 nm. (PMID:17289402)
- a kinetic model for the in vitro assembly of intermediate filaments from tetrameric vimentin (PMID:17403663)
- Vimentin is a major arterial substrate for transglutaminases.Transglutaminase-mediated vimentin dimerization produces a novel unifying pathway by which vasodilatory and remodeling responses may be regulated. (PMID:17476115)
- In conclusion, ablation of vimentin expression inhibits migration and invasion of colon and breast cancer cell lines. (PMID:17585878)
- The nestin(-) vimentin(+) fibroblasts may represent a novel type of multipotent adult stem cells in human dermis. (PMID:17652163)
- ZBP-89 functions as a repressor by recruiting HDAC1 to the vimentin promoter. (PMID:17663720)
- study of vimentin protein filament structure and assembly by electron paramagnetic resonance spectroscopy of site-directed spin labels. Review. (PMID:17703067)
- The suppression of vimentin expression by ras, and the relief of this suppression by TGFbeta, occurs in a promoter-independent fashion, possibly through sequences in the first or second intron. (PMID:17719575)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | vim | ENSDARG00000010008 |
| danio_rerio | viml | ENSDARG00000044501 |
| mus_musculus | Vim | ENSMUSG00000026728 |
| rattus_norvegicus | Vim | ENSRNOG00000018087 |
Paralogs (68): KRT33A (ENSG00000006059), KRT31 (ENSG00000094796), NEFM (ENSG00000104722), KRT23 (ENSG00000108244), KRT37 (ENSG00000108417), KRT32 (ENSG00000108759), KRT18 (ENSG00000111057), LMNB1 (ENSG00000113368), KRT36 (ENSG00000126337), KRT17 (ENSG00000128422), GFAP (ENSG00000131095), KRT34 (ENSG00000131737), KRT33B (ENSG00000131738), NES (ENSG00000132688), PRPH (ENSG00000135406), KRT85 (ENSG00000135443), KRT7 (ENSG00000135480), KRT71 (ENSG00000139648), INA (ENSG00000148798), LMNTD1 (ENSG00000152936), LMNA (ENSG00000160789), KRT84 (ENSG00000161849), KRT82 (ENSG00000161850), KRT80 (ENSG00000167767), KRT1 (ENSG00000167768), KRT24 (ENSG00000167916), KRT8 (ENSG00000170421), KRT78 (ENSG00000170423), KRT86 (ENSG00000170442), KRT75 (ENSG00000170454), KRT6C (ENSG00000170465), KRT4 (ENSG00000170477), KRT74 (ENSG00000170484), KRT72 (ENSG00000170486), KRT83 (ENSG00000170523), BFSP2 (ENSG00000170819), KRT19 (ENSG00000171345), KRT15 (ENSG00000171346), KRT38 (ENSG00000171360), KRT13 (ENSG00000171401)
Protein
Protein identifiers
Vimentin — P08670 (reviewed: P08670)
All UniProt accessions (6): A0A1B0GTT5, A0A1B0GVG8, B0YJC4, B0YJC5, P08670, V9HWE1
UniProt curated annotations — full annotation on UniProt →
Function. Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. Plays a role in cell directional movement, orientation, cell sheet organization and Golgi complex polarization at the cell migration front. Protects SCRIB from proteasomal degradation and facilitates its localization to intermediate filaments in a cell contact-mediated manner. May promote axon outgrowth and motor fiber repair via DSP-mediated recruitment to outgrowth tips. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.
Subunit / interactions. Homomer assembled from elementary dimers. Identified in complexes that contain VIM, EZR, AHNAK, BFSP1, BFSP2, ANK2, PLEC, PRX and spectrin. Identified in a complex containing at least DSP, JUP, VIM and CDH2; the complex is more abundant following crush injury in regenerating motor neurons and may promote axon outgrowth and motor fiber repair. Interacts with BCAS3. Interacts with LGSN. Interacts with SYNM. Interacts (via rod region) with PLEC (via CH 1 domain). Interacts with PLEC isoform 1C. Interacts with STK33. Interacts with LARP6. Interacts with RAB8B. Interacts with TOR1A; the interaction associates TOR1A with the cytoskeleton. Interacts with TOR1AIP1. Interacts with DIAPH1. Interacts with EPPK1; interaction is dependent of higher-order structure of intermediate filament. Interacts with the non-receptor tyrosine kinase SRMS; the interaction leads to phosphorylation of VIM. Interacts with NOD2. Interacts (via head region) with CORO1C. Interacts with HDGF (isoform 2). Interacts with PRKCE (via phorbol-ester/DAG-type 2 domain). Interacts with BFSP2. Interacts with PPL. Interacts (via rod domain) with PKP1. Interacts with PKP2. Interacts with SCRIB (via PDZ domains); the interaction protects SCRIB from proteasomal degradation and facilitates SCRIB localization to intermediate filaments, the interaction is reduced by cell contact inhibition. (Microbial infection) Interacts with HCV core protein. (Microbial infection) Interacts with Chandipura virus glycoprotein; this interaction might facilitate the binding of the virus to the cells.
Subcellular location. Cytoplasm. Cytoskeleton. Nucleus matrix. Cell membrane. Cell projection. Axon.
Tissue specificity. Highly expressed in fibroblasts, some expression in T- and B-lymphocytes, and little or no expression in Burkitt’s lymphoma cell lines. Expressed in many hormone-independent mammary carcinoma cell lines.
Post-translational modifications. Filament disassembly during mitosis is promoted by phosphorylation at Ser-55 as well as by nestin. One of the most prominent phosphoproteins in various cells of mesenchymal origin. Phosphorylation is enhanced during cell division, at which time vimentin filaments are significantly reorganized. Phosphorylation by PKN1 inhibits the formation of filaments. Phosphorylated at Ser-56 by CDK5 during neutrophil secretion in the cytoplasm. Phosphorylated by STK33. Phosphorylated on tyrosine residues by SRMS. O-glycosylated during cytokinesis at sites identical or close to phosphorylation sites, this interferes with the phosphorylation status. S-nitrosylation is induced by interferon-gamma and oxidatively-modified low-densitity lipoprotein (LDL(ox)) possibly implicating the iNOS-S100A8/9 transnitrosylase complex.
Disease relevance. Cataract 30, multiple types (CTRCT30) [MIM:116300] An opacification of the crystalline lens of the eye that frequently results in visual impairment or blindness. Opacities vary in morphology, are often confined to a portion of the lens, and may be static or progressive. In general, the more posteriorly located and dense an opacity, the greater the impact on visual function. The disease is caused by variants affecting the gene represented in this entry.
Domain organisation. The central alpha-helical coiled-coil IF rod domain mediates elementary homodimerization. The [IL]-x-C-x-x-[DE] motif is a proposed target motif for cysteine S-nitrosylation mediated by the iNOS-S100A8/A9 transnitrosylase complex.
Induction. Up-regulated by muramyl-dipeptide and lipopolysaccharide.
Similarity. Belongs to the intermediate filament family.
RefSeq proteins (1): NP_003371* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR006821 | Intermed_filament_DNA-bd | Domain |
| IPR018039 | IF_conserved | Conserved_site |
| IPR039008 | IF_rod_dom | Domain |
| IPR050405 | Intermediate_filament | Family |
Pfam: PF00038, PF04732
UniProt features (106 total): modified residue 56, cross-link 12, sequence conflict 9, region of interest 8, helix 4, coiled-coil region 3, glycosylation site 3, compositionally biased region 2, sequence variant 2, initiator methionine 1, chain 1, strand 1, turn 1, short sequence motif 1, site 1, domain 1
Structure
Experimental structures (PDB)
26 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 1GK7 | X-RAY DIFFRACTION | 1.4 |
| 4YPC | X-RAY DIFFRACTION | 1.44 |
| 4MD5 | X-RAY DIFFRACTION | 1.65 |
| 3SWK | X-RAY DIFFRACTION | 1.7 |
| 4MDJ | X-RAY DIFFRACTION | 1.7 |
| 3G1E | X-RAY DIFFRACTION | 1.83 |
| 1GK6 | X-RAY DIFFRACTION | 1.9 |
| 6ATF | X-RAY DIFFRACTION | 1.9 |
| 6ATI | X-RAY DIFFRACTION | 1.98 |
| 4MDI | X-RAY DIFFRACTION | 2 |
| 4YV3 | X-RAY DIFFRACTION | 2 |
| 6YXK | X-RAY DIFFRACTION | 2 |
| 4MD0 | X-RAY DIFFRACTION | 2.19 |
| 5WHF | X-RAY DIFFRACTION | 2.25 |
| 1GK4 | X-RAY DIFFRACTION | 2.3 |
| 3TRT | X-RAY DIFFRACTION | 2.3 |
| 4MCY | X-RAY DIFFRACTION | 2.3 |
| 6BIR | X-RAY DIFFRACTION | 2.3 |
| 4MCZ | X-RAY DIFFRACTION | 2.41 |
| 3S4R | X-RAY DIFFRACTION | 2.45 |
| 3SSU | X-RAY DIFFRACTION | 2.6 |
| 8TRR | X-RAY DIFFRACTION | 2.65 |
| 3KLT | X-RAY DIFFRACTION | 2.7 |
| 8TRQ | X-RAY DIFFRACTION | 2.75 |
| 3UF1 | X-RAY DIFFRACTION | 2.81 |
| 8RVE | ELECTRON MICROSCOPY | 7.2 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P08670-F1 | 78.05 | 0.52 |
Antibody-complex structures (SAbDab): 1 — 6YXK
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Catalytic / active sites (1): 351 (stutter)
Post-translational modifications (68): 2, 5, 7, 8, 9, 10, 20, 25, 26, 34, 39, 42, 47, 49, 51, 53, 55, 56, 61, 66 …
Glycosylation sites (3): 7, 33, 34
Function
Pathways and Gene Ontology
Reactome pathways
10 pathways
| ID | Pathway |
|---|---|
| R-HSA-264870 | Caspase-mediated cleavage of cytoskeletal proteins |
| R-HSA-390522 | Striated Muscle Contraction |
| R-HSA-6785807 | Interleukin-4 and Interleukin-13 signaling |
| R-HSA-9013422 | RHOBTB1 GTPase cycle |
| R-HSA-9613829 | Chaperone Mediated Autophagy |
| R-HSA-9615710 | Late endosomal microautophagy |
| R-HSA-9646399 | Aggrephagy |
| R-HSA-9918481 | Dengue Virus-Host Interactions |
| R-HSA-9918487 | Dengue Virus Genome Translation and Replication |
| R-HSA-9927432 | Developmental Lineage of Mammary Gland Myoepithelial Cells |
MSigDB gene sets: 564 (showing top):
GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_UP, TSUNODA_CISPLATIN_RESISTANCE_UP, GOBP_RESPONSE_TO_NITROGEN_COMPOUND, GOBP_LENS_FIBER_CELL_DIFFERENTIATION, GOBP_EPITHELIUM_DEVELOPMENT, IIZUKA_LIVER_CANCER_EARLY_RECURRENCE, GOBP_INTERMEDIATE_FILAMENT_BASED_PROCESS, DORSAM_HOXA9_TARGETS_UP, YAGI_AML_WITH_INV_16_TRANSLOCATION, HARRIS_HYPOXIA, REACTOME_CYTOKINE_SIGNALING_IN_IMMUNE_SYSTEM, GOBP_REGULATION_OF_MRNA_CATABOLIC_PROCESS, GOBP_INTERMEDIATE_FILAMENT_ORGANIZATION, GOBP_RESPONSE_TO_PEPTIDE, GOBP_CELLULAR_RESPONSE_TO_LIPID
GO Biological Process (13): positive regulation of gene expression (GO:0010628), negative regulation of neuron projection development (GO:0010977), astrocyte development (GO:0014002), neuron projection development (GO:0031175), positive regulation of collagen biosynthetic process (GO:0032967), regulation of mRNA stability (GO:0043488), intermediate filament organization (GO:0045109), Bergmann glial cell differentiation (GO:0060020), lens fiber cell development (GO:0070307), cellular response to lipopolysaccharide (GO:0071222), cellular response to muramyl dipeptide (GO:0071225), cellular response to type II interferon (GO:0071346), intermediate filament-based process (GO:0045103)
GO Molecular Function (10): double-stranded RNA binding (GO:0003725), structural constituent of cytoskeleton (GO:0005200), structural constituent of eye lens (GO:0005212), protein domain specific binding (GO:0019904), identical protein binding (GO:0042802), molecular adaptor activity (GO:0060090), scaffold protein binding (GO:0097110), keratin filament binding (GO:1990254), RNA binding (GO:0003723), protein binding (GO:0005515)
GO Cellular Component (18): cytoplasm (GO:0005737), peroxisome (GO:0005777), microtubule organizing center (GO:0005815), cytosol (GO:0005829), cytoskeleton (GO:0005856), intermediate filament (GO:0005882), plasma membrane (GO:0005886), focal adhesion (GO:0005925), nuclear matrix (GO:0016363), axon (GO:0030424), cell leading edge (GO:0031252), intermediate filament cytoskeleton (GO:0045111), phagocytic vesicle (GO:0045335), extracellular exosome (GO:0070062), nucleus (GO:0005634), membrane (GO:0016020), cell projection (GO:0042995), neuron projection (GO:0043005)
Reactome top-level categories
Rollup of top-8 pathways:
| Category | Pathways |
|---|---|
| Autophagy | 2 |
| Dengue Virus Infection | 2 |
| Apoptotic cleavage of cellular proteins | 1 |
| Muscle contraction | 1 |
| Signaling by Interleukins | 1 |
| RHOBTB GTPase Cycle | 1 |
| Selective autophagy | 1 |
| Developmental Lineages of the Mammary Gland | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 7 |
| protein binding | 3 |
| astrocyte differentiation | 2 |
| cellular response to oxygen-containing compound | 2 |
| structural molecule activity | 2 |
| cytoskeleton | 2 |
| binding | 2 |
| gene expression | 1 |
| regulation of gene expression | 1 |
| positive regulation of macromolecule biosynthetic process | 1 |
| regulation of neuron projection development | 1 |
| neuron projection development | 1 |
| negative regulation of cell projection organization | 1 |
| glial cell development | 1 |
| neuron development | 1 |
| plasma membrane bounded cell projection organization | 1 |
| positive regulation of biosynthetic process | 1 |
| positive regulation of collagen metabolic process | 1 |
| collagen biosynthetic process | 1 |
| regulation of collagen biosynthetic process | 1 |
| regulation of RNA stability | 1 |
| regulation of mRNA catabolic process | 1 |
| intermediate filament cytoskeleton organization | 1 |
| supramolecular fiber organization | 1 |
| epithelial cell development | 1 |
| lens fiber cell differentiation | 1 |
| response to lipopolysaccharide | 1 |
| cellular response to molecule of bacterial origin | 1 |
| cellular response to lipid | 1 |
| response to muramyl dipeptide | 1 |
| cellular response to nitrogen compound | 1 |
| response to type II interferon | 1 |
| cellular response to cytokine stimulus | 1 |
| cellular process | 1 |
| RNA binding | 1 |
| cytoskeleton organization | 1 |
| molecular_function | 1 |
| intermediate filament binding | 1 |
| nucleic acid binding | 1 |
| intracellular anatomical structure | 1 |
Protein interactions and networks
STRING
4902 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| VIM | ZEB1 | P37275 | 913 |
| VIM | CDH1 | P12830 | 892 |
| VIM | ZEB2 | O60315 | 889 |
| VIM | SNAI2 | O43623 | 881 |
| VIM | UBAC1 | Q9BSL1 | 874 |
| VIM | SNAI1 | O95863 | 851 |
| VIM | TWIST1 | Q15672 | 818 |
| VIM | PLEC | Q15149 | 807 |
| VIM | FN1 | P02751 | 795 |
| VIM | CDH2 | P19022 | 779 |
| VIM | LGALS1 | P09382 | 763 |
| VIM | ACTA2 | P03996 | 756 |
| VIM | VCP | P55072 | 753 |
| VIM | GAPDH | P00354 | 752 |
| VIM | COL1A1 | P02452 | 750 |
| VIM | CD44 | P16070 | 750 |
IntAct
803 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| VIM | VIM | psi-mi:“MI:0407”(direct interaction) | 0.910 |
| VIM | VIM | psi-mi:“MI:2364”(proximity) | 0.910 |
| VIM | VIM | psi-mi:“MI:0915”(physical association) | 0.910 |
| NOD2 | VIM | psi-mi:“MI:0915”(physical association) | 0.850 |
| NOD2 | VIM | psi-mi:“MI:0403”(colocalization) | 0.850 |
| VIM | NEFL | psi-mi:“MI:0914”(association) | 0.840 |
| CAPN1 | CAPNS1 | psi-mi:“MI:0914”(association) | 0.840 |
| VIM | KRT20 | psi-mi:“MI:0915”(physical association) | 0.830 |
| KRT20 | VIM | psi-mi:“MI:0915”(physical association) | 0.830 |
| DES | VIM | psi-mi:“MI:0915”(physical association) | 0.820 |
| VIM | NES | psi-mi:“MI:0915”(physical association) | 0.800 |
| VIM | TXLNB | psi-mi:“MI:0915”(physical association) | 0.720 |
| VIM | PNMA5 | psi-mi:“MI:0915”(physical association) | 0.720 |
| TXLNB | VIM | psi-mi:“MI:0915”(physical association) | 0.720 |
| PNMA5 | VIM | psi-mi:“MI:0915”(physical association) | 0.720 |
BioGRID (1109): VIM (Affinity Capture-MS), VIM (Affinity Capture-Western), VIM (Reconstituted Complex), VIM (Affinity Capture-MS), VIM (Affinity Capture-MS), VIM (Affinity Capture-MS), VIM (Two-hybrid), VIM (Two-hybrid), KRT20 (Two-hybrid), PNMA5 (Two-hybrid), CWF19L2 (Two-hybrid), TXLNB (Two-hybrid), VIM (Affinity Capture-MS), VIM (Affinity Capture-MS), VIM (Affinity Capture-MS)
ESM2 similar proteins: A0A125S9M4, A0A125S9M5, A0A125S9M6, A0A8C0N8E3, O62654, P02540, P02541, P02542, P02543, P02544, P02545, P08552, P08670, P09654, P10999, P11048, P14732, P16275, P17661, P20152, P21910, P22488, P23239, P23729, P24789, P24790, P31000, P31001, P31393, P35617, P48616, P48670, P48673, P48674, P48675, P48676, P48678, P48679, P84198, Q03427
Diamond homologs: A0A8C0N8E3, A5A6M8, A5A6N0, A6QQJ3, B4F721, O62654, O77788, O93532, O95678, P02538, P02540, P02541, P02542, P02543, P02544, P02547, P02548, P03995, P04259, P05786, P05787, P07196, P07197, P08551, P08552, P08553, P08670, P08729, P08776, P09654, P11679, P12035, P12036, P12839, P13647, P14136, P15331, P16053, P16878, P16884
SIGNOR signaling
49 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| PAK1 | unknown | VIM | phosphorylation |
| PLK1 | up-regulates | VIM | phosphorylation |
| AKT | “up-regulates quantity by stabilization” | VIM | phosphorylation |
| AKT1 | “up-regulates quantity by stabilization” | VIM | phosphorylation |
| ERG | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| ETV4 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| TOR1AIP1 | “up-regulates activity” | VIM | binding |
| RNF208 | “down-regulates quantity by destabilization” | VIM | ubiquitination |
| PRKCZ | “up-regulates activity” | VIM | phosphorylation |
| PRKCI | “up-regulates activity” | VIM | phosphorylation |
| VIM | “up-regulates activity” | LARP6 | binding |
| hsa-mir-494-3p | “down-regulates quantity by repression” | VIM | “post transcriptional regulation” |
| hsa-miR-30a-3p | “down-regulates quantity by repression” | VIM | “post transcriptional regulation” |
| hsa-miR-148a-3p | “down-regulates quantity by repression” | VIM | “post transcriptional regulation” |
| CDK5 | “up-regulates activity” | VIM | phosphorylation |
| PRKCB | “up-regulates quantity” | VIM | phosphorylation |
| TWIST1 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| VIM | up-regulates | Epithelial-mesenchymal_transition | |
| ZEB1 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| SNAI1 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| SNAI2 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| LEF1 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| TCF7 | “up-regulates quantity by expression” | VIM | “transcriptional regulation” |
| CDK1 | down-regulates | VIM | phosphorylation |
| AURKB | down-regulates | VIM | phosphorylation |
| PRKCA | “down-regulates quantity by destabilization” | VIM | phosphorylation |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 158 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| EML4 and NUDC in mitotic spindle formation | 8 | 7.1× | 9e-03 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| microtubule-based movement | 6 | 12.2× | 5e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
135 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 1 |
| Uncertain significance | 67 |
| Likely benign | 28 |
| Benign | 25 |
Top pathogenic / likely-pathogenic (1)
| Variant ID | HGVS | Classification |
|---|---|---|
| 692107 | NM_003380.5(VIM):c.1160T>C (p.Leu387Pro) | Likely pathogenic |
SpliceAI
911 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 10:17229981:GAGAA:G | donor_gain | 1.0000 |
| 10:17229983:G:GT | donor_gain | 1.0000 |
| 10:17229983:GAA:G | donor_gain | 1.0000 |
| 10:17229986:G:GG | donor_gain | 1.0000 |
| 10:17233575:T:A | acceptor_gain | 1.0000 |
| 10:17233580:A:AG | acceptor_gain | 1.0000 |
| 10:17233581:A:G | acceptor_gain | 1.0000 |
| 10:17233582:AATAG:A | acceptor_gain | 1.0000 |
| 10:17233583:ATAG:A | acceptor_gain | 1.0000 |
| 10:17233584:TA:T | acceptor_loss | 1.0000 |
| 10:17233585:A:AG | acceptor_gain | 1.0000 |
| 10:17233585:AG:A | acceptor_gain | 1.0000 |
| 10:17233585:AGGAT:A | acceptor_gain | 1.0000 |
| 10:17233586:G:GA | acceptor_gain | 1.0000 |
| 10:17233586:GG:G | acceptor_gain | 1.0000 |
| 10:17233586:GGA:G | acceptor_gain | 1.0000 |
| 10:17233586:GGAT:G | acceptor_gain | 1.0000 |
| 10:17233586:GGATG:G | acceptor_gain | 1.0000 |
| 10:17233680:GAG:G | donor_gain | 1.0000 |
| 10:17233683:G:GG | donor_gain | 1.0000 |
| 10:17233683:GTTA:G | donor_loss | 1.0000 |
| 10:17233765:T:TA | acceptor_gain | 1.0000 |
| 10:17233768:A:AG | acceptor_gain | 1.0000 |
| 10:17233768:AG:A | acceptor_gain | 1.0000 |
| 10:17233769:G:A | acceptor_gain | 1.0000 |
| 10:17233769:G:GA | acceptor_gain | 1.0000 |
| 10:17233769:GGA:G | acceptor_gain | 1.0000 |
| 10:17233769:GGAA:G | acceptor_gain | 1.0000 |
| 10:17233769:GGAAA:G | acceptor_gain | 1.0000 |
| 10:17233905:G:GT | donor_gain | 1.0000 |
AlphaMissense
3061 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 10:17229742:T:C | L107P | 1.000 |
| 10:17229751:T:A | L110Q | 1.000 |
| 10:17229751:T:C | L110P | 1.000 |
| 10:17229753:A:G | N111D | 1.000 |
| 10:17229754:A:T | N111I | 1.000 |
| 10:17229755:T:A | N111K | 1.000 |
| 10:17229755:T:G | N111K | 1.000 |
| 10:17229760:G:C | R113P | 1.000 |
| 10:17229763:T:C | F114S | 1.000 |
| 10:17229763:T:G | F114C | 1.000 |
| 10:17229766:C:A | A115D | 1.000 |
| 10:17229775:T:A | I118N | 1.000 |
| 10:17229787:G:C | R122P | 1.000 |
| 10:17229793:T:C | L124P | 1.000 |
| 10:17229802:A:C | Q127P | 1.000 |
| 10:17229814:T:C | L131P | 1.000 |
| 10:17229892:T:C | L157P | 1.000 |
| 10:17229946:G:C | R175P | 1.000 |
| 10:17233621:T:C | L220P | 1.000 |
| 10:17235299:T:C | L380P | 1.000 |
| 10:17235311:A:C | Q384P | 1.000 |
| 10:17235317:T:C | L386P | 1.000 |
| 10:17235320:T:A | L387H | 1.000 |
| 10:17235320:T:C | L387P | 1.000 |
| 10:17235328:A:G | K390E | 1.000 |
| 10:17235330:G:C | K390N | 1.000 |
| 10:17235330:G:T | K390N | 1.000 |
| 10:17235334:G:C | A392P | 1.000 |
| 10:17235337:C:T | L393F | 1.000 |
| 10:17235338:T:A | L393H | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000052726 (10:17228351 C>A,T), RS1000104769 (10:17228140 T>C), RS1000124528 (10:17228524 G>A,C), RS1001006043 (10:17232991 A>G), RS1001045982 (10:17226871 T>C), RS1001057234 (10:17232997 G>A,C), RS1001456740 (10:17232561 G>A), RS1001870717 (10:17237422 C>A,T), RS1001879216 (10:17237170 A>G), RS1001879572 (10:17226923 G>A), RS1001941060 (10:17232473 A>C), RS1001947317 (10:17228322 G>A,C,T), RS1002062743 (10:17231140 G>A), RS1002791003 (10:17237398 G>A), RS1002872537 (10:17236026 G>A,C,T)
Disease associations
OMIM: gene MIM:193060 | disease phenotypes: MIM:116300, MIM:261100
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| cataract | Definitive | Autosomal dominant |
| cataract 30 | Strong | Autosomal dominant |
| pulverulent cataract | Supportive | Autosomal dominant |
Mondo (4): cataract 30 (MONDO:0007286), Imerslund-Grasbeck syndrome (MONDO:0009853), pulverulent cataract (MONDO:0011430), cataract (MONDO:0005129)
Orphanet (4): Early onset non-syndromic cataract (Orphanet:91492), Pulverulent cataract (Orphanet:98984), Early-onset partial cataract (Orphanet:98992), Imerslund-Gräsbeck syndrome (Orphanet:35858)
HPO phenotypes
5 total (5 of 5 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0001115 | Posterior polar cataract |
| HP:0003577 | Congenital onset |
| HP:0007657 | Diffuse nuclear cataract |
| HP:0010693 | Pulverulent cataract |
GWAS associations
6 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST002221_72 | Cholesterol, total | 3.000000e-11 |
| GCST004235_38 | Total cholesterol levels | 5.000000e-11 |
| GCST010242_453 | HDL cholesterol levels | 6.000000e-11 |
| GCST010244_172 | Triglyceride levels | 2.000000e-08 |
| GCST90002397_704 | Mean spheric corpuscular volume | 8.000000e-14 |
| GCST90011899_33 | Aspartate aminotransferase levels | 3.000000e-21 |
EFO canonical traits (4, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004574 | total cholesterol measurement |
| EFO:0004612 | high density lipoprotein cholesterol measurement |
| EFO:0004530 | triglyceride measurement |
| EFO:0004736 | aspartate aminotransferase measurement |
MeSH disease descriptors (4)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D002386 | Cataract | C11.510.245 |
| C565133 | Cataract, Coppock-Like (supp.) | |
| C566157 | Cataract, Nuclear Diffuse Nonprogressive (supp.) | |
| C538556 | Imerslund-Grasbeck syndrome (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL3712854 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
ChEMBL bioactivities
5 potent at pChembl≥5 of 5 total, top 5 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 6.19 | Kd | 640.2 | nM | CHEMBL3752910 |
| 6.00 | Kd | 1000 | nM | CHEMBL5412999 |
| 6.00 | Kd | 1005 | nM | CHEMBL5653589 |
| 5.99 | ED50 | 1033 | nM | CHEMBL3752910 |
| 5.79 | ED50 | 1622 | nM | CHEMBL5653589 |
PubChem BioAssay actives
3 with measured affinity, of 30 total; 3 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.
| Compound | Assay | Type | Value | Unit |
|---|---|---|---|---|
| 4-methyl-3-[(1-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2149765: Binding affinity to human VIM incubated for 45 mins by Kinobead based pull down assay | kd | 0.6402 | uM |
| (2R)-6-amino-N-[(2R)-1-[[6-amino-5-[[(2R)-2-[[(2R)-6-amino-2-[[2-[[2-[[2-[[2-[4-aminobutyl-[2-[4-aminobutyl-[2-[[2-(4-benzoylanilino)acetyl]-(2-methylpropyl)amino]acetyl]amino]acetyl]amino]acetyl]-(2-methylpropyl)amino]acetyl]-(1,3-benzodioxol-5-ylmethyl)amino]acetyl]-(2-methoxyethyl)amino]acetyl]amino]hexanoyl]amino]-4-methylsulfanylbutanoyl]amino]-6-oxohexyl]amino]-4-methylsulfanyl-1-oxobutan-2-yl]-2-[[2-[[2-[[2-[[2-[4-aminobutyl-[2-[4-aminobutyl-[2-[[2-(4-benzoylanilino)acetyl]-(2-methylpropyl)amino]acetyl]amino]acetyl]amino]acetyl]-(2-methylpropyl)amino]acetyl]-(1,3-benzodioxol-5-ylmethyl)amino]acetyl]-(2-methoxyethyl)amino]acetyl]amino]hexanamide | 2005096: Binding affinity to his-tagged recombinant Vimentin (unknown origin) assessed as dissociation constant by ELISA analysis | kd | 1.0000 | uM |
| 4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2149765: Binding affinity to human VIM incubated for 45 mins by Kinobead based pull down assay | kd | 1.0047 | uM |
CTD chemical–gene interactions
396 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| sodium arsenite | increases expression, increases reaction, decreases reaction, increases abundance, decreases expression (+3 more) | 30 |
| bisphenol A | affects cotreatment, decreases expression, increases expression, increases reaction, affects reaction (+1 more) | 15 |
| Cadmium Chloride | affects cotreatment, affects binding, decreases reaction, increases reaction, increases cleavage (+9 more) | 14 |
| Tretinoin | decreases expression, increases reaction, affects cotreatment, increases expression | 12 |
| Particulate Matter | decreases expression, increases abundance, increases expression, decreases reaction, affects reaction (+1 more) | 12 |
| Resveratrol | affects cotreatment, decreases expression, affects secretion, decreases reaction, increases expression | 9 |
| Arsenic | increases expression, increases reaction, decreases reaction, increases ubiquitination, increases abundance (+4 more) | 9 |
| Benzo(a)pyrene | decreases expression, increases methylation, affects reaction, decreases reaction, increases expression (+2 more) | 8 |
| Estradiol | decreases reaction, increases expression, affects cotreatment, decreases expression, increases reaction (+1 more) | 8 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | decreases reaction, increases abundance, increases expression, affects cotreatment | 7 |
| bisphenol S | affects cotreatment, decreases methylation, increases expression, decreases expression, affects reaction | 7 |
| Arsenic Trioxide | increases reaction, increases expression, affects reaction, decreases reaction, decreases expression | 7 |
| Cadmium | increases palmitoylation, increases expression, decreases expression, decreases reaction, increases abundance | 7 |
| Silicon Dioxide | affects secretion, increases secretion, affects reaction, decreases reaction, increases expression (+1 more) | 7 |
| 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one | affects binding, decreases reaction, increases reaction, increases secretion, increases abundance (+4 more) | 6 |
| arsenite | increases expression, affects binding, decreases expression, increases oxidation, decreases reaction (+3 more) | 5 |
| Fulvestrant | decreases methylation, affects cotreatment, decreases reaction, increases expression | 5 |
| Acetylcysteine | increases expression, increases abundance, decreases expression, decreases reaction | 5 |
| Cisplatin | increases reaction, increases expression, decreases reaction, decreases expression | 5 |
| Niclosamide | decreases reaction, increases expression, decreases response to substance, increases phosphorylation, decreases expression | 5 |
| Tobacco Smoke Pollution | decreases reaction, increases expression, increases reaction, affects expression, decreases expression | 5 |
| Valproic Acid | decreases expression, increases expression | 5 |
| cobaltous chloride | decreases reaction, increases expression, increases reaction | 4 |
| SB 203580 | increases expression, increases phosphorylation, increases abundance, decreases reaction | 4 |
| U 0126 | decreases reaction, increases expression, increases abundance, increases reaction, increases phosphorylation | 4 |
| Copper | affects cotreatment, decreases expression, affects binding, increases cleavage | 4 |
| Doxorubicin | decreases phosphorylation, increases expression, increases response to substance, affects expression, affects cotreatment (+1 more) | 4 |
| Endosulfan | increases expression, decreases reaction | 4 |
| Glucose | affects cotreatment, increases expression, increases secretion, increases reaction | 4 |
| Plant Extracts | increases expression, decreases expression, decreases reaction | 4 |
ChEMBL screening assays
18 unique, capped per target: 18 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL4270856 | Binding | Binding affinity to vimentin in human Hela cells lysates assessed as protein enrichment by measuring normalized heavy/light ratio at by nano-LC-ESIMS/MS analysis | Determination of Gymnemic Acid I as a Protein Biosynthesis Inhibitor Using Chemical Proteomics. — J Nat Prod |
Cellosaurus cell lines
7 cell lines: 7 cancer cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_B2L2 | Abcam HeLa VIM KO | Cancer cell line | Female |
| CVCL_B8RP | Abcam HCT 116 VIM KO | Cancer cell line | Male |
| CVCL_B9U4 | Abcam A-549 VIM KO | Cancer cell line | Male |
| CVCL_D1UW | Abcam U-87MG VIM KO | Cancer cell line | Male |
| CVCL_E0SW | Ubigene HeLa VIM KO | Cancer cell line | Female |
| CVCL_TX43 | HAP1 VIM (-) 1 | Cancer cell line | Male |
| CVCL_TX44 | HAP1 VIM (-) 2 | Cancer cell line | Male |
Clinical trials (associated diseases)
300 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00273221 | PHASE4 | UNKNOWN | Combined Phacotube vs Phacotrabeculectomy:A Randomized Controlled Trial |
| NCT00312299 | PHASE4 | COMPLETED | Posterior Capsule Opacification Study |
| NCT00345046 | PHASE4 | COMPLETED | A Comparison of Three Different Formulations of Prednisolone Acetate 1% |
| NCT00347243 | PHASE4 | COMPLETED | Wavefront Analisys and Contrast Sensitivity of Spherical and Aspherical Intraocular Lenses |
| NCT00347503 | PHASE4 | COMPLETED | Aqueous Concentrations and PGE2 Inhibition of Ketorolac 0.4% vs. Bromfenac 0.09% in Cataract Patients |
| NCT00348244 | PHASE4 | COMPLETED | Ketorolac vs. Steroid in the Prevention of CME |
| NCT00348270 | PHASE4 | COMPLETED | Comparison of the Quality of Vision Provided by AMO Tecnis Z9000 and Alcon Laboratories MA60 Acrysof Posterior Chamber Intraocular Lenses |
| NCT00348582 | PHASE4 | COMPLETED | Acular LS vs. Nevanac in Post op Inflammation Following Cataract Surgery |
| NCT00348621 | PHASE4 | COMPLETED | A Study of Interventions to Reduce Disability From Visual Loss in Nursing Home Residents |
| NCT00349583 | PHASE4 | COMPLETED | Efficacy of Topical Cyclosporine Versus Tears for Improving Visual Outcomes Following Multifocal IOL Implantation |
| NCT00355446 | PHASE4 | COMPLETED | Bioavailability of Bimatoprost Ophthalmic Solution in Human Aqueous. |
| NCT00386438 | PHASE4 | COMPLETED | Efficacy of Honan Balloon in Intraocular Pressure Reduction Before Phacoemulsification |
| NCT00392275 | PHASE4 | COMPLETED | Penetrance of Third Generation Fluoroquinolones in Eyes With Functioning Filtering Blebs |
| NCT00428363 | PHASE4 | COMPLETED | Effect of Optic Edge Design in a Silicone Intraocular Lens on Posterior Capsule Opacification |
| NCT00449267 | PHASE4 | COMPLETED | Aurolab Hydrophobic Foldable Intraocular Lens Study |
| NCT00459303 | PHASE4 | COMPLETED | Comparison of Functional Vision Provided by AMO Tecnis Z9000 and Alcon SA60AT Acrysof |
| NCT00469690 | PHASE4 | COMPLETED | Aqueous Concentrations and PGE2 Inhibition of Ketorolac 0.4% vs. Bromfenac 0.09% in Cataract Patients: Trough Drug Effects |
| NCT00576485 | PHASE4 | COMPLETED | Spherical Aberration and Contrast Sensitivity in IOLs |
| NCT00612729 | PHASE4 | COMPLETED | Light Filters in Intraocular Lenses (IOLs) and Its Influence on Colour and Contrast Vision. |
| NCT00612781 | PHASE4 | COMPLETED | Yellow Versus White Study |
| NCT00630019 | PHASE4 | COMPLETED | Ocular Tissue Levels of 1.5% Levofloxacin Ophthalmic Solution Compared to an Active Comparator |
| NCT00673803 | PHASE4 | COMPLETED | Influence of Two Different Preloaded Intraocular Lens (IOLs) on Posterior Capsule Opacification |
| NCT00684138 | PHASE4 | COMPLETED | ACRYSOF® ReSTOR® Aspheric +3.0 D Add Power Intraocular Lens (IOL) |
| NCT00698724 | PHASE4 | COMPLETED | Comparing Optical Coherence Tomography (OCT) and Visual Acuity Outcomes in Subjects Undergoing Cataract Surgery, Who Receive Xibrom Ophthalmic Solution and Standard Presurgical Care vs. Xibrom Ophthalmic Solution Plus Prednisolone Acetate 1% and Standard Presurgical Care |
| NCT00710905 | PHASE4 | TERMINATED | Visual Function With Contralateral AcrySof® ReSTOR® Aspheric SN6AD1 and SN6AD3 |
| NCT00710931 | PHASE4 | COMPLETED | Visual Function With Bilateral AcrySof® ReSTOR® Aspheric SN6AD1 |
| NCT00711347 | PHASE4 | COMPLETED | Intraoperative Floppy Iris Syndrome |
| NCT00712244 | PHASE4 | COMPLETED | DisCoVisc Versus DuoVisc, Healon5 and AmVisc Plus |
| NCT00717080 | PHASE4 | COMPLETED | The Role of Capsular Tension Ring (CTR) in Anterior Capsular Contraction |
| NCT00719732 | PHASE4 | COMPLETED | Visual Function After Implantation of Bilateral AcrySof ReSTOR Aspheric +3 |
| NCT00721253 | PHASE4 | COMPLETED | Visual Outcomes of Subjects Bilaterally Implanted With ReSTOR Aspheric +4 vs. Tecnis or Acri.LISA |
| NCT00731640 | PHASE4 | COMPLETED | Contralateral ReSTOR / Monofocal or Phakic Eye |
| NCT00732030 | PHASE4 | COMPLETED | Low Cylinder Toric |
| NCT00758199 | PHASE4 | COMPLETED | Determination of Optimum Duration of Treatment With Bromfenac (Xibrom) Eyedrops Following Cataract Surgery |
| NCT00760058 | PHASE4 | WITHDRAWN | Visual Outcome and Visual Quality After Bilateral Implantation of the AcrySof® IQ IOL Compared to MI60® and Tecnis® IOL |
| NCT00760487 | PHASE4 | COMPLETED | Visual Function After Implantation of Bilateral AcrySof® Toric Natural Intraocular Lens |
| NCT00761488 | PHASE4 | WITHDRAWN | Recommendations for Monitoring Clinical Experience Following Implantation of the AcrySof® Toric |
| NCT00763360 | PHASE4 | COMPLETED | To Compare the Ability of DiscoVisc® OVD to Protect the Corneal Endothelium and Maintain Anterior Chamber Space With Healon® and Amvisc® PLUS During Cataract Surgery. |
| NCT00786370 | PHASE4 | COMPLETED | Dexmedetomidine vs. Propofol for Cataract Surgery |
| NCT00786565 | PHASE4 | COMPLETED | Clinical Evaluation of a New Aspheric Intraocular Lens. |
Related Atlas pages
- Associated diseases: cataract 30, pulverulent cataract, cataract
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): cataract, cataract 30, Imerslund-Grasbeck syndrome, pulverulent cataract