MEFV

gene
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Also known as FMFTRIM20

Summary

MEFV (MEFV innate immunity regulator, pyrin, HGNC:6998) is a protein-coding gene on chromosome 16p13.3, encoding Pyrin (O15553). Involved in the regulation of innate immunity and the inflammatory response in response to IFNG/IFN-gamma.

This gene encodes a protein, also known as pyrin or marenostrin, that is an important modulator of innate immunity. Mutations in this gene are associated with Mediterranean fever, a hereditary periodic fever syndrome.

Source: NCBI Gene 4210 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): familial Mediterranean fever (Definitive, ClinGen) — +2 more curated relationships
  • GWAS associations: 1
  • Clinical variants (ClinVar): 1,113 total — 5 pathogenic, 6 likely-pathogenic
  • Phenotypes (HPO): 164
  • Druggable target: yes
  • Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_000243

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:6998
Approved symbolMEFV
NameMEFV innate immunity regulator, pyrin
Location16p13.3
Locus typegene with protein product
StatusApproved
AliasesFMF, TRIM20
Ensembl geneENSG00000103313
Ensembl biotypeprotein_coding
OMIM608107
Entrez4210

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 9 nonsense_mediated_decay, 5 protein_coding, 2 retained_intron

ENST00000219596, ENST00000339854, ENST00000536379, ENST00000536980, ENST00000537682, ENST00000538326, ENST00000539145, ENST00000539154, ENST00000541159, ENST00000542898, ENST00000570511, ENST00000572244, ENST00000574583, ENST00000576315, ENST00000697124, ENST00000956137

RefSeq mRNA: 2 — MANE Select: NM_000243 NM_000243, NM_001198536

CCDS: CCDS10498, CCDS55981

Canonical transcript exons

ENST00000219596 — 10 exons

ExonStartEnd
ENSE0000066650832489093249004
ENSE0000116004832494313249780
ENSE0000116005432541583254790
ENSE0000345966132442543244286
ENSE0000357013532444733244588
ENSE0000358855132470163247246
ENSE0000359462832465253246547
ENSE0000363444032438603243892
ENSE0000390048132420273243694
ENSE0000390298532563113256633

Expression profiles

Bgee: expression breadth ubiquitous, 153 present calls, max score 98.75.

FANTOM5 (CAGE): breadth broad, TPM avg 10.3980 / max 679.2045, expressed in 302 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter IDTPM avgSamples expressed
15601910.3980302

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
buccal mucosa cellCL:000233698.75gold quality
monocyteCL:000057696.17gold quality
mononuclear cellCL:000084295.04gold quality
leukocyteCL:000073895.00gold quality
granulocyteCL:000009492.63gold quality
bloodUBERON:000017888.93gold quality
diaphragmUBERON:000110387.87gold quality
olfactory bulbUBERON:000226486.94gold quality
bone marrow cellCL:000209283.59gold quality
mucosa of urinary bladderUBERON:000125982.33silver quality
type B pancreatic cellCL:000016981.96gold quality
spleenUBERON:000210679.16gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047377.08gold quality
vermiform appendixUBERON:000115474.41gold quality
right lungUBERON:000216774.30gold quality
upper lobe of left lungUBERON:000895273.99gold quality
tendon of biceps brachiiUBERON:000818873.17silver quality
upper lobe of lungUBERON:000894871.48gold quality
caecumUBERON:000115371.24gold quality
medial globus pallidusUBERON:000247769.58gold quality
oocyteCL:000002368.97gold quality
oviduct epitheliumUBERON:000480467.61silver quality
hair follicleUBERON:000207366.54gold quality
periodontal ligamentUBERON:000826666.00silver quality
globus pallidusUBERON:000187565.85gold quality
smooth muscle tissueUBERON:000113565.08gold quality
left ventricle myocardiumUBERON:000656664.63gold quality
vastus lateralisUBERON:000137964.48gold quality
epithelial cell of pancreasCL:000008364.45gold quality
secondary oocyteCL:000065564.12gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes7.29

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): CEBPB, E2F1, ELF4, SP1, TP53

miRNA regulators (miRDB)

61 targeting MEFV, 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-3613-3P100.0076.367965
HSA-MIR-574-5P100.0066.01989
HSA-MIR-5193100.0067.261744
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-373-5P99.9875.364753
HSA-MIR-616-5P99.9875.584775
HSA-MIR-381-3P99.9371.872854
HSA-MIR-30099.9271.762856
HSA-MIR-6809-3P99.9171.453814
HSA-MIR-7162-3P99.8968.161682
HSA-MIR-6780A-5P99.8866.692776
HSA-MIR-4728-5P99.8569.394718
HSA-MIR-576-5P99.8470.462582
HSA-MIR-6785-5P99.8268.684428
HSA-MIR-1273H-5P99.7766.322471
HSA-MIR-465899.7764.94514
HSA-MIR-6790-5P99.7765.24505
HSA-MIR-3680-3P99.7572.513095
HSA-MIR-149-3P99.7268.223963
HSA-MIR-30B-3P99.7065.762325
HSA-MIR-3689A-3P99.7065.732306
HSA-MIR-3689B-3P99.7065.712311
HSA-MIR-3689C99.7065.712311
HSA-MIR-6779-5P99.7065.762363
HSA-MIR-6883-5P99.6968.053785
HSA-MIR-6848-3P99.6466.49885
HSA-MIR-182799.6368.573265
HSA-MIR-4649-3P99.5666.901783
HSA-MIR-7106-5P99.5367.473574

Functional genomics

ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 40)

  • mutational spectrum in the genes in patients suffering from AA amyloidosis and recurrent inflammatory attacks (PMID:12105243)
  • The effects of I591T mutation imply possibly a mild mutation, benign polymorphism, or a variant influenced by another modifier. (PMID:12124996)
  • MEFV message levels are related to both the genotype and the phenotype, and suggest that the pathophysiology of FMF relies on a quantitative defect of MEFV mRNA expression. (PMID:12384939)
  • In phenotype II amyloidosis patients, the distribution of the four common MEFV mutations was not significantly different from that found in all FMF patients with typical symptoms who do or do not develop amyloidosis. (PMID:12401847)
  • penetrance of paired recognised pathogenic MEFV mutations may frequently be incomplete (PMID:12461684)
  • there is a cryopyrin signaling pathway activated through the induced proximity of ASC, which is negatively regulated by pyrin (PMID:12615073)
  • Disease severity and the development of amyloidosis in failial Mediterranean Fever are differentially affected by genetic variations within and outside the MEFV gene. (PMID:12687559)
  • In 412 FMF patients genotyped for MEFV mutations, M694V/M694V was the most common genotype (27%), followed by M694V/V726A (16%). The full genotype could be assessed in 57% of the patients, and one disease-causing mutation in an additional 26%. (PMID:12929299)
  • Pyrin binds the PSTPIP1/CD2BP1 protein (PMID:14595024)
  • S1791 was in compound heterozygosity with MEFV mutation M694V (PMID:14636645)
  • cellular location of mutant isoforms, in the presence or absence of ASC protein (PMID:14985395)
  • MEFV mutations are not associated with Crohn Disease susceptibility, yet the presence of these mutations appears to be associated with a stricturing disease pattern and extraintestinal disease manifestations of Crohn Disease. (PMID:15667491)
  • E148Q mutation is significantly frequent in familial Mediterranean fever (PMID:15717684)
  • In Egyptian familial Mediterranean fever patients, the M694V mutation was detected in 20 patients (100%) and V726A mutation in 17 patients (85%). (PMID:15724392)
  • FMF is caused by mutations in the MEFV gene that encodes pyrin/marenostrin. (PMID:15805719)
  • The occurrence of frequent MEFV mutations in BD patients suggests that the MEFV gene is involved in the pathogenesis of Behcet’s disease. (PMID:15903027)
  • data suggest that both pyrin and cryopyrin are capable of assembling independent inflammasome complexes with ASC and procaspase-1, and activating caspase-1 via ASC oligomerization (PMID:16037825)
  • Our results indicate a relationship between some HLA-DR/DQ alleles and MEFV mutations in Mediterranean fever patients. (PMID:16245224)
  • MEFV protein mutations are associated with Familial Mediterranean fever (PMID:16378925)
  • Carrying the proinflammatory M694V pyrin allele increases the risk for myocardial infarction. Conversely, the wild-type pyrin genotype leads to longevity in a modern environment with reduced pathogen load and improved infection control. (PMID:16387839)
  • The gene coding the disease (MEFV) is identified on the 16th chromosome. The most common MEFV mutations are M694V, M680I, V726A and M694I located on exon 10 and E148Q located on exon 2. (PMID:16523434)
  • MEFV protein mutations are associated with Familial Mediterranean fever (PMID:16523438)
  • MEFV gene mutation show correlation between ulcertive colitis and familial mediterranean fever gene alteration. (PMID:16614989)
  • The severity of the disease and development of amyloidosis seem to have an association with M694V, the most common mutation in Syrian FMF patients. (PMID:16627024)
  • MEFV mutations may act as a genetic susceptibility factor for vasculitides in familial mediterranean fever patients. (PMID:16721494)
  • A putative novel MEFV missense mutation, S702C, was localized on the constructed 3-D model. (PMID:16730661)
  • The C-terminal B30.2 domain of pyrin is necessary and sufficient for the interaction with caspase-1 to modulate IL-1beta production. (PMID:16785446)
  • one MEFV mutation may indeed be conferring a heightened inflammation as suggested by the increased frequency in inflammatory symptoms; the carrier status for MEFV mutations seem to be unique, in that they cause an alteration in the state of “health”. (PMID:17067442)
  • in Ethiopian Jews in Israel, comon polymorphism in MEFV locus was found and a relatively high rate of mutation E148Q was detected (PMID:17067447)
  • Though the effects of the MEFV genotypes seem clear, there are definitely other modifying factors or genes such as MICA on the development of amyloidosis and on the course of the disease (PMID:17102945)
  • Reduced expression of the MEFV gene is associated with inflammation and that it may be one of the pathogenic mechanisms of the attacks of inflammation in familial Mediterranean fever patients. (PMID:17195238)
  • The profile of the MEFV gene mutations in the Tunisian population is concordant with other Arab populations but with some differences. (PMID:17276496)
  • MEFV appears to be a susceptibility and modifier gene in Behcet’s disease. (PMID:17454935)
  • Country of recruitment, rather than MEFV genotype, is the key risk factor for renal amyloidosis in familial Mediterranean fever. (PMID:17469185)
  • spectrum of MEFV alterations in familial Mediterranean fever patients and healthy individuals in Greece (PMID:17489852)
  • The onset of UC in infants should prompt a search for MEFV mutations as this association may influence the management of the disease. (PMID:17520284)
  • spectrum of the MEFV mutations among our sampled Lebanese Familial Mediterranean Fever patients shows the high heterogeneity at the allelic level when compared to Arab and non-Arab populations (PMID:17566872)
  • A novel mutation of the MEFV gene in a Greek family related to a non-classical, variably expressed FMF phenotype is reported. (PMID:17594097)
  • This study shows a high prevalence of mutations of the MEFV gene in patients with anti-citrullinated protein antibody-negative palindromic rheumatism. (PMID:17665427)
  • critically ill patients with systemic inflammatory response syndrome and sepsis have increased pyrin mutations, and patients with SIRS and sepsis carrying the pyrin mutation seem to be susceptible for a severe disease course (PMID:17696266)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusMefvENSMUSG00000022534
rattus_norvegicusMefvENSRNOG00000008134

Paralogs (80): MID2 (ENSG00000080561), TRIM9 (ENSG00000100505), MID1 (ENSG00000101871), TRIM35 (ENSG00000104228), TRIM14 (ENSG00000106785), TRIM37 (ENSG00000108395), TRIM2 (ENSG00000109654), TRIM3 (ENSG00000110171), TRIM38 (ENSG00000112343), TRIM62 (ENSG00000116525), TRIM67 (ENSG00000119283), TRIM32 (ENSG00000119401), BSPRY (ENSG00000119411), TRIM25 (ENSG00000121060), TRIM6 (ENSG00000121236), TRIM24 (ENSG00000122779), TRIM51 (ENSG00000124900), TRIM28 (ENSG00000130726), TRIM21 (ENSG00000132109), TRIM5 (ENSG00000132256), TRIM22 (ENSG00000132274), TRIM47 (ENSG00000132481), TRIM45 (ENSG00000134253), TRIM29 (ENSG00000137699), TRIM54 (ENSG00000138100), PML (ENSG00000140464), TRIM65 (ENSG00000141569), TRIM43B (ENSG00000144010), TRIM43 (ENSG00000144015), TRIM7 (ENSG00000146054), TRIM41 (ENSG00000146063), TRIM50 (ENSG00000146755), TRIM4 (ENSG00000146833), TRIM55 (ENSG00000147573), TRIM48 (ENSG00000150244), TRIM36 (ENSG00000152503), TRIM11 (ENSG00000154370), TRIM74 (ENSG00000155428), TRIM42 (ENSG00000155890), TRIM63 (ENSG00000158022)

Protein

Protein identifiers

PyrinO15553 (reviewed: O15553)

Alternative names: Marenostrin

All UniProt accessions (9): O15553, D2DTW1, E3P8H6, F5GZV9, F5H2E5, F5H595, F5H6N9, F8W6Z2, I3L0S7

UniProt curated annotations — full annotation on UniProt →

Function. Involved in the regulation of innate immunity and the inflammatory response in response to IFNG/IFN-gamma. Organizes autophagic machinery by serving as a platform for the assembly of ULK1, Beclin 1/BECN1, ATG16L1, and ATG8 family members and recognizes specific autophagy targets, thus coordinating target recognition with assembly of the autophagic apparatus and initiation of autophagy. Acts as an autophagy receptor for the degradation of several inflammasome components, including CASP1, NLRP1 and NLRP3, hence preventing excessive IL1B- and IL18-mediated inflammation. However, it can also have a positive effect in the inflammatory pathway, acting as an innate immune sensor that triggers PYCARD/ASC specks formation, caspase-1 activation, and IL1B and IL18 production. Together with AIM2, also acts as a mediator of pyroptosis, necroptosis and apoptosis (PANoptosis), an integral part of host defense against pathogens, in response to bacterial infection. It is required for PSTPIP1-induced PYCARD/ASC oligomerization and inflammasome formation. Recruits PSTPIP1 to inflammasomes, and is required for PSTPIP1 oligomerization.

Subunit / interactions. Homotrimer. Interacts (via the B box-type zinc finger) with PSTPIP1. Interacts (via the B30.2/SPRY domain) with several components of the inflammasome complex, including CASP1 p20 and p10 subunits, CASP5, PYCARD, NLRP1, NLRP2 and NLRP3, as well as with unprocessed IL1B; this interaction may lead to autophagic degradation of these proteins. Component of the AIM2 PANoptosome complex, a multiprotein complex that drives inflammatory cell death (PANoptosis). Interacts with NFKBIA and RELA. Interacts weakly with VASP and ACTR3. Interacts with active ULK1 (phosphorylated on ‘Ser-317’) and BECN1 simultaneously. Also interacts with ATG16L1 (via WD repeats), and with ATG8 family members, including GABARAP, GABARAPL1 and, to a lesser extent, GABARAPL2, MAP1LC3A/LC3A and MAP1LC3C/LC3C. Interacts with TRIM21. Interacts with YWHAB, YWHAE, YWHAG, YWHAH, YWHAQ and YWHAZ; the interaction is required for the down-regulation of pyrin pro-inflammatory activity.

Subcellular location. Cytoplasm. Cytoskeleton. Cell projection. Ruffle. Lamellipodium. Nucleus. Cytoplasmic vesicle. Autophagosome Nucleus.

Tissue specificity. Expressed in peripheral blood leukocytes, particularly in mature granulocytes and to a lesser extent in monocytes but not in lymphocytes. Detected in spleen, lung and muscle, probably as a result of leukocyte infiltration in these tissues. Not expressed in thymus, prostate, testis, ovary, small intestine, colon, heart, brain, placenta, liver, kidney, pancreas. Expression detected in several myeloid leukemic, colon cancer, and prostate cancer cell lines.

Post-translational modifications. Cleaved by CASP1. The N-terminal cleavage product localizes to the nucleus as a filamentous network and to the cytoplasm, interacts more strongly with RELA and NFKBIA than the full-length protein, enhances the nuclear localization of RELA and induces NFKBIA proteolysis. The C-terminal cleavage product localizes to the cytoplasm. Phosphorylation at Ser-242 is required for the interaction with 14-3-3 proteins and down-regulation of pyrin pro-inflammatory activity. Degraded along with the delivery of its substrates to autolysosomal compartments (at protein level).

Disease relevance. Familial Mediterranean fever, autosomal recessive (ARFMF) [MIM:249100] A hereditary periodic fever syndrome characterized by recurrent episodic fever, serosal inflammation and pain in the abdomen, chest or joints. It is frequently complicated by reactive amyloidosis, which leads to renal failure and can be prophylactically treated with colchicine. The disease is caused by variants affecting the gene represented in this entry. The disease-associated mutations in the B30.2/SPRY domain perturb ULK1 recruitment and autophagic degradation of inflammasome components, including NLRP3, and hence may contribute to the inflammatory phenotype associated with ARFMF. Familial Mediterranean fever, autosomal dominant (ADFMF) [MIM:134610] A hereditary periodic fever syndrome characterized by periodic fever, serosal inflammation and pain in the abdomen, chest or joints as seen also in the autosomal recessive form of the disease. It is associated with reactive renal amyloidosis and characterized by colchicine unresponsiveness. The disease is caused by variants affecting the gene represented in this entry. Pyrin-associated autoinflammatory disease (PAAND) [MIM:608068] An autosomal dominant autoinflammatory disorder characterized by childhood onset of recurrent episodes of fever, neutrophilic dermatosis, myalgia and arthralgia. The neutrophilic dermatosis comprises a spectrum of clinical manifestations, including severe acne, sterile skin abscesses, pyoderma gangrenosum, and neutrophilic small-vessel vasculitis. Pathological examination of affected skin shows a dense, predominantly neutrophilic, vascular, perivascular, and interstitial infiltrate. PAAND has incomplete penetrance and variable expressivity. The disease is caused by variants affecting the gene represented in this entry.

Domain organisation. The B box-type zinc finger interacts, possibly intramolecularly, with the pyrin domain; this may be an autoinhibitory mechanism released by PSTPIP1 binding.

Induction. In monocytes, up-regulated by treatment with colchicine and IFN-alpha, by the pro-inflammatory cytokines IFNG/IFN-gamma and TNF, by bacterial lipopolysaccharides (LPS) and by retroviral infection. Repressed in monocytes by the anti-inflammatory cytokines IL10/interleukin-10, TGFB1 and IL4/interleukin-4. In neutrophils and macrophages, up-regulated by IFNG/IFN-gamma with a peak after 8 hours of treatment.

Isoforms (3)

UniProt IDNamesCanonical?
O15553-21, FLyes
O15553-12, D2
O15553-33

RefSeq proteins (2): NP_000234, NP_001185465 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000315Znf_B-boxDomain
IPR001870B30.2/SPRYDomain
IPR003877SPRY_domDomain
IPR003879Butyrophylin_SPRYDomain
IPR004020DAPINDomain
IPR006574PRYDomain
IPR011029DEATH-like_dom_sfHomologous_superfamily
IPR013320ConA-like_dom_sfHomologous_superfamily
IPR043136B30.2/SPRY_sfHomologous_superfamily
IPR050143TRIM/RBCCFamily

Pfam: PF00622, PF00643, PF02758, PF13765

UniProt features (124 total): sequence variant 63, strand 15, helix 14, mutagenesis site 10, region of interest 5, turn 4, compositionally biased region 3, domain 2, splice variant 2, chain 1, short sequence motif 1, site 1, modified residue 1, zinc finger region 1, coiled-coil region 1

Structure

Experimental structures (PDB)

11 structures.

PDBMethodResolution (Å)
9R6YX-RAY DIFFRACTION1.26
2WL1X-RAY DIFFRACTION1.35
8C30X-RAY DIFFRACTION1.4
9R73X-RAY DIFFRACTION1.44
8C2YX-RAY DIFFRACTION1.46
9R70X-RAY DIFFRACTION1.5
8C28X-RAY DIFFRACTION1.6
9R74X-RAY DIFFRACTION2
4CG4X-RAY DIFFRACTION2.4
8SDJX-RAY DIFFRACTION2.4
2MPCSOLUTION NMR

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O15553-F173.640.50

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): 330–331 (cleavage; by casp1)

Post-translational modifications (1): 242

Mutagenesis-validated functional residues (10):

PositionPhenotype
16does not form mefv- and pstpip1-containing perinuclear specks.
24does not form mefv- and pstpip1-containing perinuclear specks.
208loss of interaction with 14-3-3 proteins.
244no effect on pycard/asc specks formation. no effect on interaction with 14-3-3 proteins.
244no effect on pycard/asc specks formation. increased interaction with 14-3-3 proteins.
244increased pycard/asc specks formation. decreased interaction with 14-3-3 proteins.
330loss of cleavage by casp1.
397–404no effect on gabarap-binding. loss of gabarap-binding; when associated with 470-y–g-488 and 523-s–d-530.
470–488no effect on gabarap-binding. loss of gabarap-binding; when associated with 397-i–h-404 and 523-s–d-530.
523–530no effect on gabarap-binding. loss of gabarap-binding; when associated with 397-i–h-404 and 470-y–g-488.

Function

Pathways and Gene Ontology

Reactome pathways

11 pathways

IDPathway
R-HSA-844456The NLRP3 inflammasome
R-HSA-9660826Purinergic signaling in leishmaniasis infection
R-HSA-1643685Disease
R-HSA-168249Innate Immune System
R-HSA-168256Immune System
R-HSA-168643Nucleotide-binding domain, leucine rich repeat containing receptor (NLR) signaling pathways
R-HSA-5663205Infectious disease
R-HSA-622312Inflammasomes
R-HSA-9658195Leishmania infection
R-HSA-9664424Cell recruitment (pro-inflammatory response)
R-HSA-9824443Parasitic Infection Pathways

MSigDB gene sets: 491 (showing top): GSE45365_NK_CELL_VS_CD11B_DC_DN, GOBP_NEGATIVE_REGULATION_OF_PROTEIN_CONTAINING_COMPLEX_ASSEMBLY, GOBP_REGULATION_OF_AUTOPHAGY, REACTOME_INNATE_IMMUNE_SYSTEM, GOBP_NEGATIVE_REGULATION_OF_INTERLEUKIN_1_PRODUCTION, GOBP_INFLAMMATORY_RESPONSE, REACTOME_THE_NLRP3_INFLAMMASOME, GOBP_RESPONSE_TO_PEPTIDE, REACTOME_INFLAMMASOMES, REACTOME_NUCLEOTIDE_BINDING_DOMAIN_LEUCINE_RICH_REPEAT_CONTAINING_RECEPTOR_NLR_SIGNALING_PATHWAYS, GOBP_POSITIVE_REGULATION_OF_CYTOKINE_PRODUCTION, GOCC_RUFFLE, GOBP_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, GOBP_INTERLEUKIN_1_PRODUCTION, HATADA_METHYLATED_IN_LUNG_CANCER_DN

GO Biological Process (20): pattern recognition receptor signaling pathway (GO:0002221), inflammatory response (GO:0006954), regulation of gene expression (GO:0010468), positive regulation of autophagy (GO:0010508), regulation of interleukin-1 beta production (GO:0032651), negative regulation of interleukin-1 beta production (GO:0032691), negative regulation of interleukin-12 production (GO:0032695), positive regulation of interleukin-1 beta production (GO:0032731), response to type II interferon (GO:0034341), innate immune response (GO:0045087), negative regulation of inflammatory response (GO:0050728), positive regulation of inflammatory response (GO:0050729), pyroptotic inflammatory response (GO:0070269), negative regulation of macrophage inflammatory protein 1 alpha production (GO:0071641), negative regulation of cytokine production involved in inflammatory response (GO:1900016), negative regulation of NLRP3 inflammasome complex assembly (GO:1900226), pyroptosome complex assembly (GO:1904270), immune system process (GO:0002376), regulation of inflammatory response (GO:0050727), response to other organism (GO:0051707)

GO Molecular Function (6): actin binding (GO:0003779), zinc ion binding (GO:0008270), identical protein binding (GO:0042802), ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (13): ruffle (GO:0001726), nucleus (GO:0005634), cytoplasm (GO:0005737), autophagosome (GO:0005776), cytosol (GO:0005829), microtubule (GO:0005874), microtubule associated complex (GO:0005875), plasma membrane (GO:0005886), lamellipodium (GO:0030027), cytoplasmic vesicle (GO:0031410), canonical inflammasome complex (GO:0061702), cytoskeleton (GO:0005856), cell projection (GO:0042995)

Reactome top-level categories

Rollup of top-9 pathways:

CategoryPathways
Inflammasomes1
Cell recruitment (pro-inflammatory response)1
Immune System1
Innate Immune System1
Disease1
Nucleotide-binding domain, leucine rich repeat containing receptor (NLR) signaling pathways1
Parasitic Infection Pathways1
Leishmania infection1
Infectious disease1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
inflammatory response4
interleukin-1 beta production3
cellular anatomical structure3
regulation of interleukin-1 beta production2
negative regulation of cytokine production2
regulation of inflammatory response2
cell leading edge2
plasma membrane bounded cell projection2
cytoplasm2
microtubule cytoskeleton2
protein-containing complex2
innate immune response-activating signaling pathway1
defense response1
gene expression1
regulation of macromolecule biosynthetic process1
autophagy1
positive regulation of catabolic process1
regulation of autophagy1
regulation of interleukin-1 production1
negative regulation of interleukin-1 production1
interleukin-12 production1
regulation of interleukin-12 production1
positive regulation of interleukin-1 production1
response to cytokine1
innate immune response1
immune response1
defense response to symbiont1
negative regulation of defense response1
negative regulation of response to external stimulus1
positive regulation of defense response1
positive regulation of response to external stimulus1
negative regulation of chemokine production1
macrophage inflammatory protein-1 alpha production1
regulation of macrophage inflammatory protein 1 alpha production1
cytokine production involved in inflammatory response1
regulation of cytokine production involved in inflammatory response1
negative regulation of protein-containing complex assembly1
NLRP3 inflammasome complex assembly1
negative regulation of inflammasome-mediated signaling pathway1
regulation of NLRP3 inflammasome complex assembly1

Protein interactions and networks

STRING

2164 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
MEFVAIM2O14862999
MEFVCASP1P29466999
MEFVNLRP1Q9C000999
MEFVNLRC4Q9NPP4999
MEFVPSTPIP1O43586997
MEFVNLRP3Q96P20990
MEFVPYCARDQ9ULZ3978
MEFVNLRP6P59044966
MEFVNAIPQ13075954
MEFVIFI16Q16666929
MEFVIL18Q14116928
MEFVIL1BP01584925
MEFVNLRP2Q9NX02922
MEFVNLRP12P59046909
MEFVNLRP7Q8WX94904

IntAct

29 interactions, top by confidence:

ABTypeScore
PYCARDMEFVpsi-mi:“MI:0407”(direct interaction)0.800
PYCARDMEFVpsi-mi:“MI:0915”(physical association)0.800
MEFVPYCARDpsi-mi:“MI:0915”(physical association)0.800
PYCARDMEFVpsi-mi:“MI:0403”(colocalization)0.800
MEFVMEFVpsi-mi:“MI:0407”(direct interaction)0.770
MEFVMEFVpsi-mi:“MI:0915”(physical association)0.770
PSTPIP1MEFVpsi-mi:“MI:0915”(physical association)0.580
MEFVPSTPIP1psi-mi:“MI:0915”(physical association)0.580
MEFVPSTPIP1psi-mi:“MI:0914”(association)0.580
MEFVCASP1psi-mi:“MI:0915”(physical association)0.400
CASP1MEFVpsi-mi:“MI:0915”(physical association)0.400
MEFVH1-2psi-mi:“MI:0915”(physical association)0.400
SPICE1MEFVpsi-mi:“MI:0914”(association)0.350
AFG2BMMP24OSpsi-mi:“MI:0914”(association)0.350
MEFVYWHAQpsi-mi:“MI:0914”(association)0.350

BioGRID (24): SIVA1 (Two-hybrid), SIVA1 (Affinity Capture-Western), ULK1 (Affinity Capture-Western), BECN1 (Affinity Capture-Western), ULK1 (Reconstituted Complex), ATG16L1 (Affinity Capture-Western), GABARAP (Reconstituted Complex), GABARAPL1 (Reconstituted Complex), MAP1LC3A (Reconstituted Complex), MAP1LC3C (Reconstituted Complex), GABARAPL2 (Reconstituted Complex), GABARAP (Protein-peptide), MEFV (Reconstituted Complex), NLRP3 (Affinity Capture-Western), MEFV (Two-hybrid)

ESM2 similar proteins: A0A087WVF3, A0A087WXS9, A0A087X179, A0A087X1G2, A6NDS4, A6NER0, A6QPT6, B9A6J9, M3WHG5, O14771, O15482, O15553, O19110, O76081, P0C7X1, P0C7X3, P0C7X4, P35125, P48778, P48967, P79209, Q13670, Q15697, Q2TBC4, Q3T191, Q3UZD7, Q4R2Z8, Q5DRQ5, Q5SSQ6, Q5XFX8, Q69ZB3, Q6DHY5, Q6IPX1, Q6ZMN8, Q8BLR5, Q8BWA8, Q8IYF1, Q8IZP1, Q8JZW5, Q8N7G0

Diamond homologs: A0JN74, A6NCK2, A6NDI0, A6NGJ6, A6NI03, A6NK02, A6NLI5, B1H278, C9J1S8, K7N6K2, O00635, O15553, O19085, O77666, P0CI25, P0CI26, P14373, P15533, P18892, P19474, Q02084, Q0PF16, Q12899, Q13410, Q1ACD5, Q1ACD6, Q1ACD7, Q1ACD8, Q1XHU0, Q2T9Z0, Q2YEM8, Q2YEM9, Q2YEN0, Q2YEN2, Q3UWZ0, Q3ZEE5, Q495X7, Q587N6, Q587N7, Q58DK8

SIGNOR signaling

7 interactions.

AEffectBMechanism
PKN1“down-regulates activity”MEFVphosphorylation
PKN2“down-regulates activity”MEFVphosphorylation
MEFV“form complex”“Pyrin inflammasome”binding
DAMPS“up-regulates activity”MEFV
PAMPs“up-regulates activity”MEFV

Disease & clinical

Clinical variants and AI predictions

ClinVar

1113 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic5
Likely pathogenic6
Uncertain significance444
Likely benign384
Benign31

Top pathogenic / likely-pathogenic (11)

Variant IDHGVSClassification
1179060NM_000243.3(MEFV):c.1510C>T (p.Gln504Ter)Pathogenic
430715NM_000243.3(MEFV):c.332G>A (p.Gly111Glu)Pathogenic
917511NM_000243.3(MEFV):c.730G>A (p.Glu244Lys)Pathogenic
966299NM_000243.3(MEFV):c.265del (p.Ala89fs)Pathogenic
971850NM_000243.3(MEFV):c.214C>T (p.Gln72Ter)Pathogenic
1179055NM_000243.3(MEFV):c.1597_1598dup (p.Asp533fs)Likely pathogenic
1677080NM_000243.3(MEFV):c.1506_1507dup (p.Ser503fs)Likely pathogenic
1694332NM_000243.3(MEFV):c.1321C>T (p.Arg441Ter)Likely pathogenic
3239681NM_000243.3(MEFV):c.590del (p.Gly197fs)Likely pathogenic
4817969NM_000243.3(MEFV):c.724A>G (p.Ser242Gly)Likely pathogenic
987917NM_000243.2:c.(?911)(1356_?)delLikely pathogenic

SpliceAI

1781 predictions. Top by Δscore:

VariantEffectΔscore
16:3243695:C:CCacceptor_gain1.0000
16:3243893:C:CCacceptor_gain1.0000
16:3247014:A:ATdonor_loss1.0000
16:3247015:C:CAdonor_loss1.0000
16:3247242:TGTTT:Tacceptor_gain1.0000
16:3247247:C:CCacceptor_gain1.0000
16:3256306:CTTA:Cdonor_loss1.0000
16:3256307:TTAC:Tdonor_loss1.0000
16:3256308:TA:Tdonor_loss1.0000
16:3256309:A:ACdonor_gain1.0000
16:3256309:AC:Adonor_gain1.0000
16:3256309:ACC:Adonor_gain1.0000
16:3256309:ACCCT:Adonor_loss1.0000
16:3256310:C:CAdonor_loss1.0000
16:3256310:C:CCdonor_gain1.0000
16:3256310:CC:Cdonor_gain1.0000
16:3256310:CCC:Cdonor_gain1.0000
16:3256310:CCCTG:Cdonor_gain1.0000
16:3243690:ATTAA:Aacceptor_gain0.9900
16:3243691:TTAA:Tacceptor_gain0.9900
16:3243892:ACTAC:Aacceptor_loss0.9900
16:3243907:C:CTacceptor_gain0.9900
16:3243908:A:Tacceptor_gain0.9900
16:3244287:C:CCacceptor_gain0.9900
16:3244292:A:ACacceptor_gain0.9900
16:3244292:A:Cacceptor_gain0.9900
16:3244294:G:Cacceptor_gain0.9900
16:3244482:A:ACdonor_gain0.9900
16:3244483:C:CCdonor_gain0.9900
16:3247012:CCACC:Cdonor_gain0.9900

AlphaMissense

5072 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
16:3256517:A:GF24S0.992
16:3243494:A:GW665R0.990
16:3243494:A:TW665R0.990
16:3256505:A:GL28P0.988
16:3243579:A:CF636L0.987
16:3243579:A:TF636L0.987
16:3243581:A:GF636L0.987
16:3249533:G:CF386L0.983
16:3249533:G:TF386L0.983
16:3249535:A:GF386L0.983
16:3256367:A:GL74P0.983
16:3243216:G:CS757R0.982
16:3243216:G:TS757R0.982
16:3243218:T:GS757R0.982
16:3243524:A:GW655R0.982
16:3243524:A:TW655R0.982
16:3256516:G:CF24L0.980
16:3256516:G:TF24L0.980
16:3256518:A:GF24L0.980
16:3256382:A:GL69P0.979
16:3256469:A:GI40T0.979
16:3256510:G:CF26L0.979
16:3256510:G:TF26L0.979
16:3256512:A:GF26L0.979
16:3256513:C:AK25N0.978
16:3256513:C:GK25N0.978
16:3243294:A:CF731L0.976
16:3243294:A:TF731L0.976
16:3243296:A:GF731L0.976
16:3256391:G:TA66D0.976

dbSNP variants (sampled 300 via entrez): RS1000206830 (16:3254894 T>C), RS1000657059 (16:3254711 C>A,G,T), RS1000771273 (16:3252879 G>A,T), RS1000923269 (16:3249253 A>G), RS1001220599 (16:3253792 G>A,C), RS1001256948 (16:3244733 G>A,C), RS1001641114 (16:3248585 G>A,T), RS1001713133 (16:3248350 G>A,C), RS1001938136 (16:3253322 C>A,T), RS1001986425 (16:3249785 G>A,T), RS1002291138 (16:3254618 C>G,T), RS1002530785 (16:3245720 T>C), RS1003619678 (16:3255063 T>A,C), RS1003659192 (16:3250853 G>A,C), RS1003679881 (16:3257772 T>C)

Disease associations

OMIM: gene MIM:608107 | disease phenotypes: MIM:134610, MIM:608068, MIM:152700, MIM:601744, MIM:115200, MIM:109650, MIM:242300, MIM:117000, MIM:193300, MIM:256730

GenCC curated gene-disease

DiseaseClassificationInheritance
familial Mediterranean feverDefinitiveAutosomal recessive
autosomal recessive familial Mediterranean feverDefinitiveAutosomal recessive
familial Mediterranean fever, autosomal dominantStrongAutosomal recessive

ClinGen Gene-Disease Validity (1)

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

DiseaseClassificationInheritance
familial Mediterranean feverDefinitiveSD

Mondo (12): familial Mediterranean fever (MONDO:0018088), familial Mediterranean fever, autosomal dominant (MONDO:0007601), sweet syndrome (MONDO:0011959), autoinflammatory syndrome (MONDO:0019751), systemic lupus erythematosus (MONDO:0007915), dilated cardiomyopathy 1A (MONDO:0007269), Behcet disease (MONDO:0007191), autosomal recessive congenital ichthyosis (MONDO:0017265), central core myopathy (MONDO:0007294), von Hippel-Lindau disease (MONDO:0008667), neuronal ceroid lipofuscinosis (MONDO:0016295), autosomal recessive familial Mediterranean fever (MONDO:0009572)

Orphanet (11): Familial Mediterranean fever (Orphanet:342), Sweet syndrome (Orphanet:3243), Autoinflammatory syndrome (Orphanet:93665), Systemic lupus erythematosus (Orphanet:536), Familial dilated cardiomyopathy with conduction defect due to LMNA mutation (Orphanet:300751), Behçet disease (Orphanet:117), Autosomal recessive congenital ichthyosis (Orphanet:281097), Central core disease (Orphanet:597), Von Hippel-Lindau disease (Orphanet:892), Neuronal ceroid lipofuscinosis (Orphanet:216), OBSOLETE: Infantile neuronal ceroid lipofuscinosis (Orphanet:79263)

HPO phenotypes

164 total (30 of 164 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000007Autosomal recessive inheritance
HP:0000031Epididymitis
HP:0000083Renal insufficiency
HP:0000093Proteinuria
HP:0000099Glomerulonephritis
HP:0000100Nephrotic syndrome
HP:0000112Nephropathy
HP:0000121Nephrocalcinosis
HP:0000155Oral ulcer
HP:0000271Abnormality of the face
HP:0000464Abnormality of the neck
HP:0000488Retinopathy
HP:0000518Cataract
HP:0000613Photophobia
HP:0000618Blindness
HP:0000708Atypical behavior
HP:0000716Depression
HP:0000737Irritability
HP:0000739Anxiety
HP:0000934Chondrocalcinosis
HP:0000988Skin rash
HP:0001055Erysipelas
HP:0001061Acne
HP:0001097Keratoconjunctivitis sicca
HP:0001155Abnormality of the hand
HP:0001250Seizure
HP:0001251Ataxia
HP:0001269Hemiparesis
HP:0001287Meningitis

GWAS associations

1 associations (top):

StudyTraitp-value
GCST007844_18Ankylosing spondylitis2.000000e-12

MeSH disease descriptors (6)

DescriptorNameTree numbers
D001528Behcet SyndromeC07.465.075; C11.941.879.780.880.200; C14.907.940.100; C16.320.382.250; C17.800.827.368.250; C17.800.862.150
D010505Familial Mediterranean FeverC16.320.382.625
D008180Lupus Erythematosus, SystemicC17.300.480; C20.111.590
D020512Myopathy, Central CoreC05.651.575.300; C10.668.491.550.300
D016463Sweet SyndromeC17.800.229.800
D006623von Hippel-Lindau DiseaseC10.562.925; C14.907.077.925; C16.131.077.245.750; C16.320.184.750

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL6196061 (SINGLE PROTEIN)

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

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

ChemicalActions (top 5)PubMed papers
(+)-JQ1 compounddecreases expression2
Air Pollutantsaffects expression, increases abundance, increases expression2
Tobacco Smoke Pollutiondecreases expression, increases expression2
Aflatoxin B1increases methylation2
Asian ginsengdecreases reaction, increases expression1
TL8-506affects cotreatment, increases expression1
triphenyl phosphateaffects expression1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression, affects cotreatment, decreases expression1
di-n-butylphosphoric acidaffects expression1
abrineincreases expression1
bisphenol Sdecreases methylation1
Resveratrolaffects cotreatment, increases expression1
Air Pollutants, Occupationaldecreases expression1
Antimycin Aincreases expression1
Beclomethasoneincreases response to substance1
Benzo(a)pyreneaffects methylation, decreases methylation1
Diethylhexyl Phthalatedecreases reaction, increases expression1
Estradiolaffects cotreatment, increases expression1
Goldincreases expression1
Lipopolysaccharidesaffects cotreatment, decreases expression, affects response to substance, increases expression1
Nickeldecreases expression1
Ozoneincreases abundance, affects expression1
Plant Extractsaffects cotreatment, increases expression1
Thiramdecreases expression1
Valproic Acidincreases methylation1
Particulate Matterincreases expression, increases abundance1

ChEMBL screening assays

1 unique, capped per target: 1 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL6076381BindingInhibition of pyrin inflammasome activation in human U-937 cells assessed as IL-1beta secretion preincubated for 1 hr followed by BAA473 addition and measured after 4 hrsDiscovery of NP3-253, a Potent Brain Penetrant Inhibitor of the NLRP3 Inflammasome. — J Med Chem

Cellosaurus cell lines

3 cell lines: 2 induced pluripotent stem cell, 1 finite cell line

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

CellosaurusNameCategorySex
CVCL_9T92GM14978Finite cell lineMale
CVCL_9U21KU_FMF_iPSC_1Induced pluripotent stem cellMale
CVCL_E4ELRAUi002-AInduced pluripotent stem cellMale

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT02602028PHASE4COMPLETEDThe Comparison of the Efficacy of Once and Twice Daily Colchicine Dosage in Pediatric Patients With FMF
NCT06666335PHASE4NOT_YET_RECRUITINGA Study to Evaluate Efficacy and Safety of Anakinra in Chinese Patients With Colchicine-resistent FMF
NCT00120887PHASE4COMPLETEDLupus Atherosclerosis Prevention Study
NCT00125307PHASE4COMPLETEDTacrolimus for the Treatment of Systemic Lupus Erythematosus With Membranous Nephritis
NCT00188188PHASE4UNKNOWNStudy of Endothelial Dysfunction in Systemic Lupus and Its Role in Heart Disease
NCT00371501PHASE4COMPLETEDAspirin and Statins for Prevention of Atherosclerosis and Arterial Thromboembolism in Systemic Lupus Erythematosus
NCT00392093PHASE4COMPLETEDEffect of Hormone Replacement Therapy on Lupus Activity
NCT00413361PHASE4COMPLETEDThe Reduction of Systemic Lupus Erythematosus Flares :Study PLUS
NCT00508898PHASE4WITHDRAWNThe Efficacy and Safety of Calcitriol for the Treatment of Lupus Nephritis and Persistent Proteinuria
NCT00668330PHASE4COMPLETEDSteroid Induced Osteoporosis in Patients With Systemic Lupus Erythematosus
NCT00739050PHASE4TERMINATEDEffect of Simvastatin on Endothelial Function in Premenopausal Women With Systemic Lupus Erythematosus (0733-271)(TERMINATED)
NCT00815282PHASE4COMPLETEDImmune Response After Human Papillomavirus Vaccination in Patients With Autoimmune Disease
NCT00828178PHASE4COMPLETEDEfficacy of Fish Oil in Lupus Patients
NCT00866229PHASE4UNKNOWNEfficacy and Adverse Effect of Simvastatin Compare to Rosuvastatin in Systemic Lupus Erythematosus (SLE) Patients With Corticosteroid Therapy and High Low-Density Lipoprotein (LDL) Cholesterol Level
NCT00911521PHASE4COMPLETEDImmunogenicity and Safety of a Quadrivalent Human Papillomavirus (HPV) Vaccine in Patients With SLE: a Controlled Study
NCT01101802PHASE4COMPLETEDMycophenolate Mofetil in Systemic Lupus Erythematosus (MISSILE)
NCT01112215PHASE4COMPLETEDEnteric-coated Mycophenolate Sodium Versus Azathioprine for the Extra-renal Lupus Manifestations
NCT01151644PHASE4UNKNOWNSafety and Efficacy of Anti-Pandemic H1N1 Vaccination in Rheumatic Diseases
NCT01276782PHASE4WITHDRAWNLevothyroxine in Pregnant SLE Patients
NCT01322308PHASE4COMPLETEDEffect of Pioglitazone on Endothelial Function in Premenopausal Women With Uncomplicated Systemic Lupus Erythematosus
NCT01359826PHASE4WITHDRAWNThe Effect of Milnacipran on Fatigue and Quality of Life in Lupus Patients
NCT01597492PHASE4COMPLETEDA Study to Evaluate the Effect of Belimumab on Vaccine Responses in Subjects With Systemic Lupus Erythematosus (SLE)
NCT01632241PHASE4COMPLETEDEfficacy and Safety of Belimumab in Black Race Patients With Systemic Lupus Erythematosus (SLE)
NCT01705977PHASE4COMPLETEDBelimumab Assessment of Safety in SLE
NCT01753401PHASE4COMPLETEDActhar for the Treatment of Systemic Lupus Erythematosus (SLE) in Patients With a History of Persistently Active Disease
NCT02270970PHASE4UNKNOWNEvaluation of Belimumab Impact on a BLyS Activity Signature Test in the Absence of Confounding Polypharmacy
NCT02477150PHASE4COMPLETEDSafety and Immunogenicity of a Zoster Vaccine in SLE
NCT02741960PHASE4COMPLETEDThe Effect of Metformin on Reducing Lupus Flares
NCT02779153PHASE4WITHDRAWNActhar SLE (Systemic Lupus Erythematosus)
NCT02953821PHASE4COMPLETEDActhar Gel for Active Systemic Lupus Erythematosus (SLE)
NCT03042260PHASE4UNKNOWNProphylactic Trimethoprim/Sulfamethoxazole to Prevent Severe Infections in Patients With Lupus Erythematous
NCT03098823PHASE4COMPLETEDA Crossover Study to Compare RAYOS to IR Prednisone to Improve Fatigue and Morning Symptoms for SLE
NCT03122431PHASE4COMPLETEDRelevance of Monitoring Blood and Salivar Levels of Drugs Used in Rheumatic Autoimmune Diseases
NCT03543839PHASE4RECRUITINGTrial of Belimumab in Early Lupus
NCT04447053PHASE4UNKNOWNSequential Belimumab and T-cell Based Therapy in SLE
NCT04515719PHASE4COMPLETEDEfficacy and Safety of Belimumab in SLE Patients
NCT04893161PHASE4UNKNOWNA Model About the Response of Belimumab in SLE
NCT04908865PHASE4COMPLETEDOpen-label Study of Belimumab Plus Standard Therapy in Chinese Pediatric Participants With Active Systemic Lupus Erythematosus (SLE)
NCT04956484PHASE4COMPLETEDBelimumab In Early Systemic Lupus Erythematosus
NCT05559671PHASE4RECRUITINGSafety of the Herpes Zoster Subunit Vaccine in Lupus