EIF2B5

gene
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Also known as EIF2BepsilonEIF-2B

Summary

EIF2B5 (eukaryotic translation initiation factor 2B subunit epsilon, HGNC:3261) is a protein-coding gene on chromosome 3q27.1, encoding Translation initiation factor eIF2B subunit epsilon (Q13144). Acts as a component of the translation initiation factor 2B (eIF2B) complex, which catalyzes the exchange of GDP for GTP on eukaryotic initiation factor 2 (eIF2) gamma subunit. It is a common-essential gene (DepMap: required in 97.0% of cancer cell lines).

This gene encodes one of five subunits of eukaryotic translation initiation factor 2B (EIF2B), a GTP exchange factor for eukaryotic initiation factor 2 and an essential regulator for protein synthesis. Mutations in this gene and the genes encoding other EIF2B subunits have been associated with leukoencephalopathy with vanishing white matter.

Source: NCBI Gene 8893 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): leukoencephalopathy with vanishing white matter 5 (Definitive, ClinGen) — +3 more curated relationships
  • GWAS associations: 28
  • Clinical variants (ClinVar): 853 total — 49 pathogenic, 46 likely-pathogenic
  • Phenotypes (HPO): 11
  • Druggable target: yes — 1 molecules with ChEMBL bioactivity
  • Cancer dependency (DepMap): dependent in 97.0% of screened cell lines (common-essential)
  • MANE Select transcript: NM_003907

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:3261
Approved symbolEIF2B5
Nameeukaryotic translation initiation factor 2B subunit epsilon
Location3q27.1
Locus typegene with protein product
StatusApproved
AliasesEIF2Bepsilon, EIF-2B
Ensembl geneENSG00000145191
Ensembl biotypeprotein_coding
OMIM603945
Entrez8893

Gene structure

Transcript identifiers

Ensembl transcripts: 44 — 17 nonsense_mediated_decay, 16 protein_coding, 10 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000432569, ENST00000432982, ENST00000465218, ENST00000468748, ENST00000471832, ENST00000479250, ENST00000481054, ENST00000484154, ENST00000491008, ENST00000491144, ENST00000492226, ENST00000492773, ENST00000493740, ENST00000498831, ENST00000647636, ENST00000647909, ENST00000648145, ENST00000648189, ENST00000648256, ENST00000648314, ENST00000648599, ENST00000648630, ENST00000648682, ENST00000648882, ENST00000648890, ENST00000648915, ENST00000649545, ENST00000649688, ENST00000649814, ENST00000650244, ENST00000650270, ENST00000896962, ENST00000896963, ENST00000896965, ENST00000896966, ENST00000896968, ENST00000896969, ENST00000926646, ENST00000926647, ENST00000926648, ENST00000926649, ENST00000950216, ENST00000950217, ENST00000950218

RefSeq mRNA: 1 — MANE Select: NM_003907 NM_003907

CCDS: CCDS3252

Canonical transcript exons

ENST00000648915 — 16 exons

ExonStartEnd
ENSE00002454580184144884184145311
ENSE00003475918184143052184143142
ENSE00003492021184140418184140730
ENSE00003514319184136612184136736
ENSE00003534680184143442184143565
ENSE00003536383184142502184142603
ENSE00003617725184140080184140157
ENSE00003632558184144597184144707
ENSE00003643722184137898184138075
ENSE00003649614184141925184142070
ENSE00003651593184138166184138246
ENSE00003656619184144099184144224
ENSE00003668116184142779184142886
ENSE00003675665184137620184137805
ENSE00003682432184142237184142378
ENSE00003835844184135358184135580

Expression profiles

Bgee: expression breadth ubiquitous, 286 present calls, max score 95.25.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 28.7584 / max 166.4055, expressed in 1821 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
4012327.47831821
401210.6996298
401220.5805308

Top tissues by expression

295 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
sural nerveUBERON:001548895.25gold quality
tendon of biceps brachiiUBERON:000818895.13gold quality
gastrocnemiusUBERON:000138894.76gold quality
adenohypophysisUBERON:000219694.74gold quality
right hemisphere of cerebellumUBERON:001489094.70gold quality
middle temporal gyrusUBERON:000277194.56gold quality
cerebellar hemisphereUBERON:000224594.52gold quality
muscle of legUBERON:000138394.50gold quality
cerebellar cortexUBERON:000212994.31gold quality
cervix squamous epitheliumUBERON:000692294.24silver quality
pituitary glandUBERON:000000794.13gold quality
minor salivary glandUBERON:000183093.97gold quality
mucosa of transverse colonUBERON:000499193.83gold quality
granulocyteCL:000009493.79gold quality
right lobe of thyroid glandUBERON:000111993.78gold quality
skin of legUBERON:000151193.69gold quality
skin of abdomenUBERON:000141693.59gold quality
body of stomachUBERON:000116193.58gold quality
metanephros cortexUBERON:001053393.52gold quality
left lobe of thyroid glandUBERON:000112093.51gold quality
rectumUBERON:000105293.37gold quality
small intestine Peyer’s patchUBERON:000345493.34gold quality
esophagus mucosaUBERON:000246993.33gold quality
saliva-secreting glandUBERON:000104493.31gold quality
right uterine tubeUBERON:000130293.31gold quality
body of pancreasUBERON:000115093.27gold quality
tendonUBERON:000004393.20gold quality
tonsilUBERON:000237293.19gold quality
transverse colonUBERON:000115793.13gold quality
cerebellumUBERON:000203793.13gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes6.98
E-MTAB-7606no763.69

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NFKB

miRNA regulators (miRDB)

25 targeting EIF2B5, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-200B-3P100.0073.312693
HSA-MIR-200C-3P100.0073.352685
HSA-MIR-429100.0073.442698
HSA-MIR-7110-3P100.0073.182486
HSA-MIR-118499.9968.191458
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-30099.9271.762856
HSA-MIR-431999.7669.832586
HSA-MIR-6722-3P99.4567.621919
HSA-MIR-125A-5P99.3670.591640
HSA-MIR-125B-5P99.3670.361662
HSA-MIR-130A-5P99.3370.262623
HSA-MIR-5589-3P99.2968.301443
HSA-MIR-544B99.1867.411632
HSA-MIR-4717-3P99.0666.341072
HSA-MIR-1909-3P99.0366.561662
HSA-MIR-92299.0267.231838
HSA-MIR-1228-3P99.0066.53857
HSA-MIR-432698.9767.63962
HSA-MIR-118398.7567.101116
HSA-MIR-6728-3P98.6367.631534
HSA-MIR-4691-5P98.4166.771343
HSA-MIR-6792-3P98.4166.861359
HSA-MIR-62196.7666.89371
HSA-MIR-6777-3P95.3564.30699

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 97.0% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 25)

  • Cree leukoencephalopathy and CACH/VWM disease are allelic at the EIF2B5 locus. (PMID:12325082)
  • Mutation in EIF2B5 causes childhood ataxia with central nervous system hypomyelination/ vanishing white matter leukodystrophy. (PMID:12707859)
  • We demonstrated that mutations in the gene EIF2B5 cause “leukoencephalopathy with vanishing white matter.” This gene encodes one of the five subunits of the translation factor eIF2B. (PMID:14572143)
  • Biochemical analyses indicate that mutations analyzed in eIF2Balpha and -epsilon reduce the steady-state level of the affected subunit, while the most severe mutant tested, eIF2Bbeta(V341D), forms complexes with reduced stability and lower eIF2B activity. (PMID:14993275)
  • mutations in EIF2b5 causes a specific reduction in the generation of GFAP+ astrocytes in vanishing white matter disease (PMID:15723074)
  • Arg113His mutation in eIF2B5 associated with adult onset of vanishing white matter leukoencephalopathy is not present in multiple sclerosis patients (PMID:17439913)
  • We describe progressive megalencephaly and severe brain abnormalities due to specific EIF2Bepsilon mutations in two unrelated families. (PMID:17646634)
  • Study reports 9 novel mutations in EIF2B genes in 8 patients, increasing number of known mutations to more than 120. Using homology modeling, analyzed the impact of novel mutations on the 5 subunits of eIF2B protein (alpha, beta, gamma, delta, epsilon) (PMID:18263758)
  • These data support the importance of the non-catalytic domain of the eIF2Bepsilon subunit in the eIF2B complex formation and activity. (PMID:18294360)
  • no evidence for the involvement of EIF2B5 in multiple sclerosis susceptibility in France (PMID:18562513)
  • Resistance exercise decreases eIF2Bepsilon phosphorylation and potentiates the feeding-induced stimulation of p70S6K1 and rpS6 in young men. (PMID:18565837)
  • The clinical phenotype in vanishing white matter disease is influenced by the combination of both mutations(p.Arg113His and p.Thr91Ala/p.Arg339any). Females tend to do better than males. (PMID:20975056)
  • crystal structure of the guanine nucleotide exchange factor for elf2 (PMID:21204011)
  • Functional analysis of recently identified mutations in eukaryotic translation initiation factor 2Bepsilon (eIF2Bepsilon) identified in Chinese patients with vanishing white matter disease (PMID:21307862)
  • Also a mutation c.1913G>A[p.Arg638 His] in exon 14 of the EIF2B5-Gens as single nucleotide polymorphism. (PMID:21503715)
  • Missense mutations in EIF2B5 are associated with multiple sclerosis. (PMID:24980014)
  • Patient exhibits an early-infantile onset and progressive disease course resembling Cree leukoencephalopathy, suggesting a severe functional disruption of eIF2Bepsilon caused by R195H as well as by I408T mutations. (PMID:25457085)
  • This study demonstrated that no evidence for a role of Ile587Val polymorphism of EIF2B5 gene in multiple sclerosis in Kashmir Valley if India. (PMID:26671108)
  • Exon-level analyses classified > 1,000 mRNAs as alternatively spliced under hypoxia and uncovered a unique retained intron (RI) in the master regulator of translation initiation, EIF2B5. (PMID:28961236)
  • low expression found in ovarian cancer tissues and correlated with survival status (PMID:32000373)
  • Foetal onset of EIF2B related disorder in two siblings: cerebellar hypoplasia with absent Bergmann glia and severe hypomyelination. (PMID:32293553)
  • eIF2B as a Target for Viral Evasion of PKR-Mediated Translation Inhibition. (PMID:32665273)
  • Vanishing white matter disease expression of truncated EIF2B5 activates induced stress response. (PMID:33300869)
  • CircAHNAK upregulates EIF2B5 expression to inhibit the progression of ovarian cancer by modulating the JAK2/STAT3 signaling pathway. (PMID:35710311)
  • A novel missense variant in EIF2B5 identified in a consanguineous Iranian family with vanishing white matter disease and a brief review of the literature. (PMID:37674283)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_rerioeif2b5ENSDARG00000074995
mus_musculusEif2b5ENSMUSG00000003235
rattus_norvegicusEif2b5ENSRNOG00000038160
drosophila_melanogastereIF2BepsilonFBGN0023512
caenorhabditis_elegansWBGENE00008428

Paralogs (3): EIF2B3 (ENSG00000070785), GMPPA (ENSG00000144591), GMPPB (ENSG00000173540)

Protein

Protein identifiers

Translation initiation factor eIF2B subunit epsilonQ13144 (reviewed: Q13144)

Alternative names: eIF2B GDP-GTP exchange factor subunit epsilon

All UniProt accessions (18): A0A3B3IRP4, A0A3B3IS56, A0A3B3ISA5, A0A3B3ISI2, A0A3B3ISM8, A0A3B3ISS1, Q13144, A0A3B3IST9, A0A3B3ISV1, A0A3B3ISX3, A0A3B3IT53, A0A3B3ITG6, A0A3B3ITK8, A0A3B3ITQ2, A0A3B3IUB1, A0A3B3IUF2, C9JRD9, H7C2X0

UniProt curated annotations — full annotation on UniProt →

Function. Acts as a component of the translation initiation factor 2B (eIF2B) complex, which catalyzes the exchange of GDP for GTP on eukaryotic initiation factor 2 (eIF2) gamma subunit. Its guanine nucleotide exchange factor activity is repressed when bound to eIF2 complex phosphorylated on the alpha subunit, thereby limiting the amount of methionyl-initiator methionine tRNA available to the ribosome and consequently global translation is repressed.

Subunit / interactions. Component of the translation initiation factor 2B (eIF2B) complex which is a heterodecamer of two sets of five different subunits: alpha, beta, gamma, delta and epsilon. Subunits alpha, beta and delta comprise a regulatory subcomplex and subunits epsilon and gamma comprise a catalytic subcomplex. Within the complex, the hexameric regulatory complex resides at the center, with the two heterodimeric catalytic subcomplexes bound on opposite sides.

Subcellular location. Cytoplasm. Cytosol.

Post-translational modifications. Phosphorylated at Ser-544 by DYRK2; this is required for subsequent phosphorylation by GSK3B. Phosphorylated on serine and threonine residues by GSK3B; phosphorylation inhibits its function. Polyubiquitinated, probably by NEDD4.

Disease relevance. Leukoencephalopathy with vanishing white matter 5 (VWM5) [MIM:620315] An autosomal recessive brain disease characterized by neurological features including progressive cerebellar ataxia, spasticity, and cognitive deficits. Brain imaging shows abnormal white matter that vanishes over time and is replaced by cerebrospinal fluid. Disease severity ranges from fatal infantile forms to adult forms without neurological deterioration. The disease is progressive with, in most individuals, additional episodes of rapid deterioration following febrile infections or minor head trauma. Death may occurs after a variable period after disease onset, usually following an episode of fever and coma. A subset of affected females with milder forms of the disease who survive to adolescence exhibit ovarian dysfunction. This variant of the disorder is called ovarioleukodystrophy. The disease is caused by variants affecting the gene represented in this entry.

Activity regulation. Activated by the chemical integrated stress response (ISR) inhibitor ISRIB which stimulates guanine nucleotide exchange factor activity for both phosphorylated and unphosphorylated eIF2.

Similarity. Belongs to the eIF-2B gamma/epsilon subunits family.

RefSeq proteins (1): NP_003898* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR003307W2_domainDomain
IPR011004Trimer_LpxA-like_sfHomologous_superfamily
IPR016024ARM-type_foldHomologous_superfamily
IPR029044Nucleotide-diphossugar_transHomologous_superfamily
IPR035543eIF-2B_epsilon_NDomain
IPR044123W2_eIF2B_epsilonDomain
IPR051956eIF2B_epsilonFamily
IPR056764LbH_EIF2B3/5Domain

Pfam: PF02020, PF25084

UniProt features (119 total): sequence variant 31, strand 30, helix 25, modified residue 12, turn 7, cross-link 4, compositionally biased region 4, region of interest 3, initiator methionine 1, chain 1, domain 1

Structure

Experimental structures (PDB)

26 structures.

PDBMethodResolution (Å)
3JUIX-RAY DIFFRACTION2
7VLKELECTRON MICROSCOPY2.27
7F64ELECTRON MICROSCOPY2.42
7RLOELECTRON MICROSCOPY2.6
9HVEELECTRON MICROSCOPY2.7
7F66ELECTRON MICROSCOPY2.76
6CAJELECTRON MICROSCOPY2.8
7L70ELECTRON MICROSCOPY2.8
7TRJELECTRON MICROSCOPY2.8
9QC6ELECTRON MICROSCOPY2.83
8TQZELECTRON MICROSCOPY2.9
7KMFELECTRON MICROSCOPY2.91
7L7GELECTRON MICROSCOPY3
6O85ELECTRON MICROSCOPY3.03
6O9ZELECTRON MICROSCOPY3.03
9HVDELECTRON MICROSCOPY3.04
8TQOELECTRON MICROSCOPY3.1
6O81ELECTRON MICROSCOPY3.21
7F67ELECTRON MICROSCOPY3.59
7D45ELECTRON MICROSCOPY3.8
7D44ELECTRON MICROSCOPY4
7D46ELECTRON MICROSCOPY4
6EZOELECTRON MICROSCOPY4.1
6K71ELECTRON MICROSCOPY4.3
7D43ELECTRON MICROSCOPY4.3
6K72ELECTRON MICROSCOPY4.6

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q13144-F179.350.41

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (16): 2, 19, 27, 130, 322, 450, 466, 469, 532, 540, 544, 717, 61, 103, 141, 217

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-72731Recycling of eIF2:GDP

MSigDB gene sets: 235 (showing top): GOBP_CYTOPLASMIC_TRANSLATION, GOBP_RESPONSE_TO_NITROGEN_COMPOUND, TGCGCANK_UNKNOWN, GOBP_RESPONSE_TO_ENDOPLASMIC_RETICULUM_STRESS, GOBP_ANTIGEN_RECEPTOR_MEDIATED_SIGNALING_PATHWAY, GOBP_GLIAL_CELL_DEVELOPMENT, GOBP_TRANSLATIONAL_INITIATION, GOBP_NEUROGENESIS, GOMF_TRANSLATION_INITIATION_FACTOR_ACTIVITY, GOBP_FOREBRAIN_DEVELOPMENT, GOBP_TRANSLATION, GOBP_POSITIVE_REGULATION_OF_TRANSLATIONAL_INITIATION, GOBP_POST_TRANSCRIPTIONAL_REGULATION_OF_GENE_EXPRESSION, GOBP_OVARIAN_FOLLICLE_DEVELOPMENT, GOBP_REGULATION_OF_IMMUNE_RESPONSE

GO Biological Process (17): ovarian follicle development (GO:0001541), cytoplasmic translational initiation (GO:0002183), translational initiation (GO:0006413), response to heat (GO:0009408), response to glucose (GO:0009749), astrocyte development (GO:0014002), oligodendrocyte development (GO:0014003), hippocampus development (GO:0021766), response to endoplasmic reticulum stress (GO:0034976), myelination (GO:0042552), positive regulation of apoptotic process (GO:0043065), response to peptide hormone (GO:0043434), positive regulation of translational initiation (GO:0045948), astrocyte differentiation (GO:0048708), T cell receptor signaling pathway (GO:0050852), translation (GO:0006412), positive regulation of translation (GO:0045727)

GO Molecular Function (4): translation initiation factor activity (GO:0003743), guanyl-nucleotide exchange factor activity (GO:0005085), translation initiation factor binding (GO:0031369), protein binding (GO:0005515)

GO Cellular Component (4): nucleus (GO:0005634), cytoplasm (GO:0005737), cytosol (GO:0005829), eukaryotic translation initiation factor 2B complex (GO:0005851)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Cap-dependent Translation Initiation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
translational initiation4
anatomical structure development2
translation2
glial cell development2
cellular anatomical structure2
cytoplasm2
female gonad development1
cytoplasmic translation1
formation of translation initiation ternary complex1
metabolic process1
response to stress1
response to temperature stimulus1
response to hexose1
astrocyte differentiation1
oligodendrocyte differentiation1
pallium development1
limbic system development1
cellular response to stress1
axon ensheathment1
apoptotic process1
regulation of apoptotic process1
positive regulation of programmed cell death1
response to hormone1
response to nitrogen compound1
response to oxygen-containing compound1
regulation of translational initiation1
positive regulation of translation1
central nervous system development1
glial cell differentiation1
antigen receptor-mediated signaling pathway1
peptidyltransferase activity1
translational elongation1
translational termination1
macromolecule biosynthetic process1
protein metabolic process1
protein biosynthetic process1
regulation of translation1
positive regulation of gene expression1
positive regulation of protein metabolic process1
translation factor activity1

Protein interactions and networks

STRING

2560 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
EIF2B5EIF2B1Q14232998
EIF2B5EIF2B2P49770995
EIF2B5EIF2B4Q9UI10995
EIF2B5EIF2B3Q9NR50985
EIF2B5EIF2S3P41091961
EIF2B5RABIFP47224901
EIF2B5EIF2AK4Q9P2K8849
EIF2B5EIF2S1P05198818
EIF2B5EIF2S2P20042759
EIF2B5EIF5P55010736
EIF2B5EIF2AK3Q9NZJ5649
EIF2B5EIF3MQ7L2H7636
EIF2B5EIF1P41567580
EIF2B5GSK3BP49841558
EIF2B5PLP1P04400536

IntAct

172 interactions, top by confidence:

ABTypeScore
STX11SNAP23psi-mi:“MI:0914”(association)0.900
EIF2B1EIF2B2psi-mi:“MI:0915”(physical association)0.860
EIF2B1EIF2B5psi-mi:“MI:0914”(association)0.860
EIF2B1EIF2B2psi-mi:“MI:0914”(association)0.860
EIF2B2EIF2B5psi-mi:“MI:0915”(physical association)0.830
STX11EIF2B5psi-mi:“MI:0915”(physical association)0.670
EIF2B2SLC27A2psi-mi:“MI:0914”(association)0.640
ILVBLCOG7psi-mi:“MI:0914”(association)0.640
P2RX4FAM20Bpsi-mi:“MI:0914”(association)0.640
DYNC1H1EIF2B5psi-mi:“MI:0915”(physical association)0.560
KLK6EIF2B5psi-mi:“MI:0915”(physical association)0.560
KSR2POLR3Apsi-mi:“MI:0914”(association)0.530
GYPBTCAF2psi-mi:“MI:0914”(association)0.530
EPHA1EXOC5psi-mi:“MI:0914”(association)0.530
PTGER3PIK3R2psi-mi:“MI:0914”(association)0.530

BioGRID (257): EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B5 (Affinity Capture-MS), EIF2B2 (Co-fractionation)

ESM2 similar proteins: A0A0B7P9G0, A0A0R4IMY7, A0JPA0, D3ZAA9, O35454, P0C1Q3, P0C588, P16067, P20594, P32232, P33402, P35525, P46197, P47823, P51432, P51788, Q01970, Q13144, Q14168, Q1LWG4, Q32PX9, Q3TWN3, Q3USB7, Q3V384, Q4U2V3, Q502J0, Q5EBA1, Q5U2P1, Q62688, Q66K14, Q69ZF7, Q6P4Q7, Q7L5N7, Q80YD1, Q8BYI6, Q8CIR4, Q8IYB8, Q8K394, Q8WV93, Q91WT9

Diamond homologs: P47823, P56287, Q0P8J8, Q13144, Q54RF3, Q5R7L4, Q5ZLT7, Q64350, Q6P2Z0, Q6P7P5, Q7L1Q6, Q8AVM7, Q8CHW4, Q9CQC6, D4GU70, P32501, P37820, P87163, Q1LUC1, Q2L4X1, Q4R6R4, Q6PD83, Q88QT2, Q91VK1, Q9WTT7, Q9Y6E2, A2VD83, A3QMC8, B9CM12, O22287, O31822, O74484, O74624, O93827, P08075, P0A2K7, P0A2K8, P0AAB6, P0AAB7, P0C5I2

SIGNOR signaling

16 interactions.

AEffectBMechanism
GSK3Bdown-regulatesEIF2B5binding
GSK3Bdown-regulatesEIF2B5phosphorylation
CSNK1A1unknownEIF2B5phosphorylation
CSNK2A1“up-regulates activity”EIF2B5phosphorylation
CSNK2A2“up-regulates activity”EIF2B5phosphorylation
GSK3A“down-regulates activity”EIF2B5phosphorylation
GSK3B“down-regulates activity”EIF2B5phosphorylation
EIF2B5“up-regulates activity”EIF2S1“guanine nucleotide exchange factor”
EIF2B5“up-regulates activity”EIF2S2“guanine nucleotide exchange factor”
EIF2B5“up-regulates activity”EIF2S3“guanine nucleotide exchange factor”
EIF2B5“up-regulates activity”Ternary_GTP_eIF2_tRNA_complex“guanine nucleotide exchange factor”
FRAT1“up-regulates activity”EIF2B5binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 181 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.

GO biological processes:

GO termPartnersFoldFDR
T cell costimulation716.9×1e-04
translational initiation716.2×1e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

853 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic49
Likely pathogenic46
Uncertain significance231
Likely benign438
Benign14

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1028674NM_003907.3(EIF2B5):c.1485C>G (p.Tyr495Ter)Pathogenic
1070136NM_003907.3(EIF2B5):c.1196del (p.Gly399fs)Pathogenic
1071687NM_003907.3(EIF2B5):c.1543_1544del (p.Trp515fs)Pathogenic
1072193NM_003907.3(EIF2B5):c.1487del (p.Leu496fs)Pathogenic
1335978NM_003907.3(EIF2B5):c.820C>T (p.Arg274Ter)Pathogenic
1352082NM_003907.3(EIF2B5):c.1182del (p.Tyr395fs)Pathogenic
1397252NM_003907.3(EIF2B5):c.702dup (p.Ser235Ter)Pathogenic
1405188NM_003907.3(EIF2B5):c.1590del (p.Glu530fs)Pathogenic
1420544NM_003907.3(EIF2B5):c.805C>T (p.Arg269Ter)Pathogenic
1451172NM_003907.3(EIF2B5):c.406C>T (p.Arg136Cys)Pathogenic
1451793NM_003907.3(EIF2B5):c.946C>T (p.Arg316Ter)Pathogenic
1453780NM_003907.3(EIF2B5):c.1884G>A (p.Trp628Ter)Pathogenic
1453942NM_003907.3(EIF2B5):c.1129del (p.Ser377fs)Pathogenic
1685765NM_003907.3(EIF2B5):c.889G>A (p.Gly297Ser)Pathogenic
1707203NM_003907.3(EIF2B5):c.799C>T (p.Gln267Ter)Pathogenic
1806183NM_003907.3(EIF2B5):c.1264C>T (p.Arg422Ter)Pathogenic
195203NM_003907.3(EIF2B5):c.318A>T (p.Leu106Phe)Pathogenic
1994086NM_003907.3(EIF2B5):c.350_351del (p.Leu117fs)Pathogenic
2025301NM_003907.3(EIF2B5):c.1484del (p.Tyr495fs)Pathogenic
2097660NM_003907.3(EIF2B5):c.1694delinsTTTCTTGTGCATCTCCACTACAGAGGAGCGGGGCATCTCCACTAC (p.Lys565fs)Pathogenic
2098216NM_003907.3(EIF2B5):c.250del (p.Thr84fs)Pathogenic
2203468NM_003907.3(EIF2B5):c.218T>G (p.Val73Gly)Pathogenic
2424793NC_000003.11:g.(?183857858)(183862741_?)delPathogenic
2691284NM_003907.3(EIF2B5):c.1930G>T (p.Glu644Ter)Pathogenic
2734599NM_003907.3(EIF2B5):c.1684C>T (p.Gln562Ter)Pathogenic
2734601NM_003907.3(EIF2B5):c.1813del (p.Leu605fs)Pathogenic
2736131NM_003907.3(EIF2B5):c.470C>G (p.Ser157Ter)Pathogenic
2766433NM_003907.3(EIF2B5):c.872dup (p.Thr292fs)Pathogenic
2768396NM_003907.3(EIF2B5):c.692_702del (p.Leu230_Phe231insTer)Pathogenic
2782153NM_003907.3(EIF2B5):c.792delinsACA (p.Phe264fs)Pathogenic

SpliceAI

2675 predictions. Top by Δscore:

VariantEffectΔscore
3:184136684:G:GTdonor_gain1.0000
3:184136685:A:Tdonor_gain1.0000
3:184136737:G:GGdonor_gain1.0000
3:184137619:GGA:Gacceptor_gain1.0000
3:184137619:GGAA:Gacceptor_gain1.0000
3:184138006:GGAT:Gdonor_gain1.0000
3:184138164:A:AGacceptor_gain1.0000
3:184138165:G:GGacceptor_gain1.0000
3:184138165:GA:Gacceptor_gain1.0000
3:184138242:CTCAG:Cdonor_loss1.0000
3:184138243:TCAGG:Tdonor_loss1.0000
3:184138244:CAG:Cdonor_loss1.0000
3:184138245:AGGT:Adonor_loss1.0000
3:184138246:GGTGA:Gdonor_loss1.0000
3:184138247:GTGA:Gdonor_loss1.0000
3:184138248:T:Gdonor_loss1.0000
3:184140074:CCACA:Cacceptor_loss1.0000
3:184140075:CACA:Cacceptor_loss1.0000
3:184140077:CA:Cacceptor_loss1.0000
3:184140155:G:GTdonor_gain1.0000
3:184142231:CCTTA:Cacceptor_loss1.0000
3:184142232:CTTAG:Cacceptor_loss1.0000
3:184142233:TTA:Tacceptor_loss1.0000
3:184142234:TAG:Tacceptor_loss1.0000
3:184142235:A:ACacceptor_loss1.0000
3:184142235:A:AGacceptor_gain1.0000
3:184142235:AG:Aacceptor_gain1.0000
3:184142235:AGGT:Aacceptor_gain1.0000
3:184142235:AGGTG:Aacceptor_gain1.0000
3:184142236:G:GTacceptor_gain1.0000

AlphaMissense

4744 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
3:184137706:G:CR136P1.000
3:184140104:T:CF264L1.000
3:184140106:T:AF264L1.000
3:184140106:T:GF264L1.000
3:184136694:T:AV93D0.999
3:184137693:G:AG132R0.999
3:184137693:G:CG132R0.999
3:184137694:G:AG132E0.999
3:184137703:T:CL135P0.999
3:184137705:C:AR136S0.999
3:184138237:T:GC252W0.999
3:184140103:C:AN263K0.999
3:184140103:C:GN263K0.999
3:184143067:T:AV557D0.999
3:184143118:T:CL574P0.999
3:184143127:A:TE577V0.999
3:184143128:A:CE577D0.999
3:184143128:A:TE577D0.999
3:184143135:T:CS580P0.999
3:184143139:T:CL581P0.999
3:184143447:C:AA584D0.999
3:184144906:T:CL710P0.999
3:184137694:G:TG132V0.998
3:184137703:T:AL135H0.998
3:184137741:T:CF148L0.998
3:184137743:T:AF148L0.998
3:184137743:T:GF148L0.998
3:184138235:T:CC252R0.998
3:184140090:T:CL259P0.998
3:184140105:T:GF264C0.998

dbSNP variants (sampled 300 via entrez): RS1000246272 (3:184138897 A>C), RS1000521365 (3:184144441 T>C), RS1000636351 (3:184136677 T>C,G), RS1000701491 (3:184138649 C>A,T), RS1000985816 (3:184136976 A>G), RS1001303286 (3:184140273 C>A,T), RS1001347715 (3:184133627 G>A), RS1001401609 (3:184133927 T>C), RS1002008468 (3:184137193 G>A), RS1002081116 (3:184145691 C>T), RS1002474766 (3:184138921 C>T), RS1002697060 (3:184140361 TGGG>T,TGG,TGGGG), RS1003294633 (3:184138756 C>T), RS1003746706 (3:184135207 C>A,T), RS1003972659 (3:184134972 G>A)

Disease associations

OMIM: gene MIM:603945 | disease phenotypes: MIM:603896, MIM:620315, MIM:312080

GenCC curated gene-disease

DiseaseClassificationInheritance
leukoencephalopathy with vanishing white matterDefinitiveAutosomal recessive
leukoencephalopathy with vanishing white matter 5DefinitiveAutosomal recessive
leukoencephalopathy with vanishing white matter 1StrongAutosomal recessive
ovarioleukodystrophySupportiveAutosomal recessive

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
leukoencephalopathy with vanishing white matter 5DefinitiveAR

Mondo (7): leukoencephalopathy with vanishing white matter (MONDO:0800448), leukoencephalopathy with vanishing white matter 5 (MONDO:0957873), leukoencephalopathy with vanishing white matter 1 (MONDO:0020507), leukodystrophy (MONDO:0019046), hereditary breast ovarian cancer syndrome (MONDO:0003582), (MONDO:0011380), (MONDO:0020506)

Orphanet (5): CACH syndrome (Orphanet:135), Ovarioleukodystrophy (Orphanet:99853), Cree leukoencephalopathy (Orphanet:99854), Leukodystrophy (Orphanet:68356), Hereditary breast and/or ovarian cancer syndrome (Orphanet:145)

HPO phenotypes

11 total (11 of 11 shown, HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0001259Coma
HP:0001355Megalencephaly
HP:0002344Progressive neurologic deterioration
HP:0002500Abnormal cerebral white matter morphology
HP:0002505Loss of ambulation
HP:0003593Infantile onset
HP:0006956Lateral ventricle dilatation
HP:0007082Dilated third ventricle
HP:0011463Childhood onset
HP:6000447Decreased CSF asialotransferrin to transferrin ratio

GWAS associations

28 associations (top):

StudyTraitp-value
GCST001469_1Major depressive disorder5.000000e-06
GCST004603_258Platelet count4.000000e-38
GCST004603_261Platelet count4.000000e-51
GCST004603_262Platelet count2.000000e-50
GCST004607_262Plateletcrit9.000000e-42
GCST004607_265Plateletcrit9.000000e-63
GCST004607_266Plateletcrit4.000000e-65
GCST004628_65Immature fraction of reticulocytes3.000000e-09
GCST006269_778General cognitive ability2.000000e-09
GCST010242_90HDL cholesterol levels3.000000e-08
GCST010699_102Brain morphology (min-P)2.000000e-11
GCST010701_37Cortical surface area (MOSTest)2.000000e-24
GCST010702_18Subcortical volume (MOSTest)5.000000e-08
GCST010703_130Brain morphology (MOSTest)3.000000e-08
GCST90002387_84Immature fraction of reticulocytes8.000000e-15
GCST90002390_302Mean corpuscular hemoglobin6.000000e-09
GCST90002392_723Mean corpuscular volume1.000000e-12
GCST90002400_411Plateletcrit4.000000e-13
GCST90002400_412Plateletcrit4.000000e-30
GCST90002400_415Plateletcrit1.000000e-85
GCST90002400_416Plateletcrit1.000000e-14
GCST90002400_417Plateletcrit9.000000e-109
GCST90002402_662Platelet count4.000000e-13
GCST90002402_663Platelet count8.000000e-29
GCST90002402_666Platelet count1.000000e-67
GCST90002402_667Platelet count2.000000e-13
GCST90002402_668Platelet count4.000000e-82
GCST90002403_558Red blood cell count5.000000e-09

EFO canonical traits (8, from GWAS)

EFO IDTrait name
EFO:0004309platelet count
EFO:0007985platelet crit
EFO:0007986reticulocyte count
EFO:0004337intelligence
EFO:0004612high density lipoprotein cholesterol measurement
EFO:0004346neuroimaging measurement
EFO:0004527mean corpuscular hemoglobin
EFO:0004305erythrocyte count

MeSH disease descriptors (1)

DescriptorNameTree numbers
D061325Hereditary Breast and Ovarian Cancer SyndromeC04.588.180.483; C04.588.322.455.431; C04.700.517; C12.050.351.500.056.630.705.431; C12.050.351.937.418.685.431; C12.100.250.056.630.705.431; C12.900.418.685.431; C16.320.700.517; C17.800.090.500.483; C19.344.410.431; C19.391.630.705.431

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5725120 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

1 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 1,538 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

MoleculeNamePhasePatents
CHEMBL1232461MOLIBRESIB21,538

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

3 potent at pChembl≥5 of 3 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
6.51IC50310nMMOLIBRESIB
5.29Kd5145nMCHEMBL3752910
5.29ED505145nMCHEMBL3752910

PubChem BioAssay actives

2 with measured affinity, of 8 total; 2 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
2-[(4S)-6-(4-chlorophenyl)-8-methoxy-1-methyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepin-4-yl]-N-ethylacetamide2178892: Inhibition of EIF2B5 (unknown origin) incubated for 1 hr by colloidal coomassie staining based LC-MS/MS analysisic500.3100uM
4-methyl-3-[(1-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide2149856: Binding affinity to human EIF2B5 incubated for 45 mins by Kinobead based pull down assaykd5.1453uM

CTD chemical–gene interactions

31 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arsenitedecreases expression2
FR900359increases phosphorylation1
bisphenol Faffects cotreatment, decreases expression1
2,4,6-tribromophenoldecreases expression1
bufotalinincreases expression1
alpha-pineneaffects cotreatment, increases oxidation, increases abundance1
bisphenol Adecreases expression1
decabromobiphenyl etherdecreases expression1
tetrabromobisphenol Adecreases expression1
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance1
abrineincreases expression1
2,2’,4,4’-tetrabromodiphenyl etherdecreases expression1
pentabrominated diphenyl ether 100decreases expression1
hexabrominated diphenyl ether 153decreases expression1
bisphenol AFincreases expression1
Resveratrolincreases expression, affects cotreatment1
Acroleinincreases abundance, affects cotreatment, increases oxidation1
Air Pollutantsaffects cotreatment, increases abundance, increases oxidation1
Cadmiumincreases expression1
Dexamethasoneaffects cotreatment, decreases expression1
Doxorubicinaffects expression1
Colforsinincreases expression1
Haloperidolincreases expression1
Indomethacinaffects cotreatment, decreases expression1
Ivermectindecreases expression1
Ozoneaffects cotreatment, increases oxidation, increases abundance1
Plant Extractsaffects cotreatment, increases expression1
Thiramdecreases expression1
1-Methyl-3-isobutylxanthineaffects cotreatment, decreases expression1
Copper Sulfatedecreases expression1

ChEMBL screening assays

7 unique, capped per target: 7 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL5652898BindingBinding affinity to human EIF2B5 incubated for 45 mins by Kinobead based pull down assayNVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Cellosaurus cell lines

3 cell lines: 3 induced pluripotent stem cell

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_E4U3KOLF2.1J EIF2B5 9.7kbdel DEL/WTInduced pluripotent stem cellMale
CVCL_E7KSKOLF2.1J EIF2B5 R195H SNV/SNVInduced pluripotent stem cellMale
CVCL_E7KTKOLF2.1J EIF2B5 R195H SNV/WTInduced pluripotent stem cellMale

Clinical trials (associated diseases)

63 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT02562170PHASE4COMPLETEDProtexa® Versus TiLoopBra® in Immediate Breast Reconstruction- A Pilot Study
NCT00673335PHASE3COMPLETEDLetrozole in Preventing Breast Cancer in Postmenopausal Women With a BRCA1 or BRCA2 Mutation
NCT00685256PHASE3COMPLETEDStandard Genetic Counseling With or Without a Decision Guide in Improving Communication Between Mothers Undergoing BRCA1/2 Testing and Their Minor-Age Children
NCT03162276PHASE3UNKNOWNTrial of Inquiry Based Stress Reduction (IBSR) Program for BRCA1/2 Mutation Carriers
NCT00253539PHASE2COMPLETEDArzoxifene or Tamoxifen in Preventing Breast Cancer in Premenopausal Women at High Risk for Breast Cancer
NCT00305695PHASE2COMPLETEDZoledronate or Observation in Maintaining Bone Mineral Density in Patients Who Are Undergoing Surgery to Remove Both Ovaries
NCT00321633PHASE2COMPLETEDCarboplatin or Docetaxel in Treating Women With Metastatic Genetic Breast Cancer
NCT01333748PHASE2COMPLETEDSearch Allelic Imbalance of Expression of BRCA Genes in Hereditary Risk of Breast and/or Ovarian Cancer
NCT01367639PHASE2COMPLETEDTrial of Inquiry Based Stress Reduction (IBSR) Program for BRCA1/2 Mutation Carriers
NCT00535119PHASE1COMPLETEDVeliparib, Carboplatin, and Paclitaxel in Treating Patients With Advanced Solid Cancer
NCT00892736PHASE1COMPLETEDVeliparib in Treating Patients With Malignant Solid Tumors That Do Not Respond to Previous Therapy
NCT05757141PHASE1/PHASE2RECRUITINGAn Open-Label Exploratory Study of Fosigotifator in Participants With Vanishing White Matter Disease
NCT07272525EARLY_PHASE1ACTIVE_NOT_RECRUITINGResearch Study for Single-Patient Treatment of Cree Leukoencephalopathy/Vanishing White Matter Disease
NCT02699190Not specifiedCOMPLETEDLeukoSEQ: Whole Genome Sequencing as a First-Line Diagnostic Tool for Leukodystrophies
NCT03047369Not specifiedRECRUITINGThe Myelin Disorders Biorepository Project
NCT03333200Not specifiedRECRUITINGLongitudinal Study of Neurodegenerative Disorders
NCT06594016Not specifiedNO_LONGER_AVAILABLEExpanded Access to Fosigotifator
NCT07300397Not specifiedACTIVE_NOT_RECRUITINGSingle Patient Investigational Treatment for Cree Leukoencephalopathy
NCT00889174Not specifiedCOMPLETEDThe Nosology and Etiology of Leukodystrophies of Unknown Causes
NCT01793168Not specifiedRECRUITINGRare Disease Patient Registry & Natural History Study - Coordination of Rare Diseases at Sanford
NCT02843555Not specifiedCOMPLETEDNatural History of the Leukodystrophies
NCT03639285Not specifiedRECRUITINGNatural History, Diagnosis, and Outcomes for Leukodystrophies
NCT05443906Not specifiedRECRUITINGHome Exercise for Individuals with Neurodegenerative Disease
NCT03832985EARLY_PHASE1COMPLETEDPediatric Reporting of Adult-Onset Genomic Results
NCT00005095Not specifiedRECRUITINGSpecimen and Data Study for Ovarian Cancer Early Detection and Prevention
NCT00609505Not specifiedCOMPLETEDTelemedicine vs. Face-to-Face Cancer Genetic Counseling
NCT01273909Not specifiedUNKNOWNOutcomes After Perforator Flap Reconstruction for Breast Reconstruction and/or Lymphedema Treatment
NCT01445275Not specifiedWITHDRAWNCost of Cancer Risk Management in Women at Elevated Genetic Risk for Ovarian Cancer Who Participated on GOG-0199
NCT01608074Not specifiedACTIVE_NOT_RECRUITINGRadical Fimbriectomy for Young BRCA Mutation Carriers
NCT02087592Not specifiedCOMPLETEDFeasibility of Lifestyle Intervention in BRCA1/2 Mutation Carriers
NCT02302742Not specifiedRECRUITINGTriple Negative Breast Cancer and Germline Hereditary Breast and Ovarian Cancer Mutation Carrier Registry
NCT02324062Not specifiedCOMPLETEDCancer Genetics Hereditary Cancer Panel Testing
NCT02516540Not specifiedUNKNOWNEfficacy of Lifestyle Intervention in BRCA1/2 Mutation Carriers
NCT02653105Not specifiedACTIVE_NOT_RECRUITINGWomen at Risk of Breast Cancer and OLFM4
NCT02705924Not specifiedTERMINATEDImpact of a Psychoeducational Intervention on Expectations and Coping in Young Women Exposed to a High HBOC Risk
NCT02760849Not specifiedACTIVE_NOT_RECRUITINGSurgery in Preventing Ovarian Cancer in Patients With Genetic Mutations
NCT02786147Not specifiedCOMPLETEDIdentification and Referral of Women at Risk for Hereditary Breast/Ovarian Cancer
NCT02956681Not specifiedCOMPLETEDStatewide Communication to Reach Diverse Low Income Women
NCT03015376Not specifiedUNKNOWNInherited Susceptible Genes Among Epithelial Ovarian Cancer
NCT03050268Not specifiedRECRUITINGFamilial Investigations of Childhood Cancer Predisposition