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Protein

Hepatitis A virus cellular receptor 1

Gene

HAVCR1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

May play a role in T-helper cell development and the regulation of asthma and allergic diseases. Receptor for TIMD4 (By similarity). May play a role in kidney injury and repair.By similarity1 Publication
(Microbial infection) Acts as a receptor for hepatitis A virus (PubMed:9658108). Acts as a receptor for ebolavirus and marburg virus by binding exposed phosphatidyl-serine at the surface of virion membrane (PubMed:21536871). Acts as a receptor for Dengue virus by binding exposed phosphatidyl-serine at the surface of virion membrane (PubMed:23084921).3 Publications

GO - Molecular functioni

  • virus receptor activity Source: CACAO
Complete GO annotation...

Keywords - Molecular functioni

Host cell receptor for virus entry, Receptor

Keywords - Biological processi

Host-virus interaction

Names & Taxonomyi

Protein namesi
Recommended name:
Hepatitis A virus cellular receptor 1
Short name:
HAVcr-1
Alternative name(s):
Kidney injury molecule 1
Short name:
KIM-1
T-cell immunoglobulin and mucin domain-containing protein 1
Short name:
TIMD-1
T-cell immunoglobulin mucin receptor 1
Short name:
TIM
Short name:
TIM-1
T-cell membrane protein 1
Gene namesi
Name:HAVCR1
Synonyms:KIM1, TIM1, TIMD1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:17866. HAVCR1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini21 – 290270ExtracellularSequence analysisAdd
BLAST
Transmembranei291 – 31121HelicalSequence analysisAdd
BLAST
Topological domaini312 – 35948CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • integral component of membrane Source: UniProtKB-KW
  • motile cilium Source: CACAO
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

MalaCardsiHAVCR1.
PharmGKBiPA134924567.

Polymorphism and mutation databases

BioMutaiHAVCR1.
DMDMi73919877.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2020Sequence analysisAdd
BLAST
Chaini21 – 359339Hepatitis A virus cellular receptor 1PRO_0000014981Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi36 ↔ 105PROSITE-ProRule annotation
Disulfide bondi46 ↔ 57PROSITE-ProRule annotation
Disulfide bondi52 ↔ 104PROSITE-ProRule annotation
Glycosylationi65 – 651N-linked (GlcNAc...)Sequence analysis
Glycosylationi258 – 2581N-linked (GlcNAc...)Sequence analysis
Glycosylationi272 – 2721N-linked (GlcNAc...)Sequence analysis
Glycosylationi286 – 2861N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ96D42.
PaxDbiQ96D42.
PeptideAtlasiQ96D42.
PRIDEiQ96D42.

PTM databases

iPTMnetiQ96D42.
PhosphoSiteiQ96D42.

Expressioni

Tissue specificityi

Widely expressed, with highest levels in kidney and testis. Expressed by activated CD4+ T-cells during the development of helper T-cells responses.1 Publication

Inductioni

Up-regulated in the kidney in renal diseases (at protein level).1 Publication

Gene expression databases

BgeeiQ96D42.
CleanExiHS_HAVCR1.
ExpressionAtlasiQ96D42. baseline and differential.
GenevisibleiQ96D42. HS.

Interactioni

Subunit structurei

(Microbial infection) Interacts with hepatitis A virus capsid proteins.1 Publication

Protein-protein interaction databases

BioGridi117812. 1 interaction.
IntActiQ96D42. 1 interaction.
MINTiMINT-2872051.
STRINGi9606.ENSP00000344844.

Structurei

Secondary structure

1
359
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi22 – 309Combined sources
Beta strandi32 – 343Combined sources
Beta strandi45 – 506Combined sources
Turni56 – 594Combined sources
Beta strandi60 – 645Combined sources
Beta strandi66 – 749Combined sources
Helixi83 – 853Combined sources
Beta strandi90 – 945Combined sources
Helixi97 – 993Combined sources
Beta strandi101 – 1077Combined sources
Beta strandi110 – 1134Combined sources
Beta strandi116 – 12510Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5DZOX-ray1.30A22-127[»]
5F70X-ray1.80A21-123[»]
ProteinModelPortaliQ96D42.
SMRiQ96D42. Positions 22-129.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini21 – 121101Ig-like V-typeAdd
BLAST
Repeati138 – 14361
Repeati144 – 14962
Repeati150 – 15563
Repeati156 – 16054
Repeati161 – 16665
Repeati167 – 17266
Repeati173 – 17867
Repeati179 – 18468
Repeati185 – 19069
Repeati191 – 196610
Repeati197 – 202611

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni138 – 2026511 X 6 AA approximate tandem repeats of V-P-T-T-T-T]Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi130 – 20576Thr-richAdd
BLAST

Sequence similaritiesi

Belongs to the immunoglobulin superfamily. TIM family.Curated

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IZDR. Eukaryota.
ENOG410YSF7. LUCA.
InParanoidiQ96D42.
OrthoDBiEOG7PP57H.
PhylomeDBiQ96D42.
TreeFamiTF336163.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003006. Ig/MHC_CS.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]
PfamiPF07686. V-set. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q96D42-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MHPQVVILSL ILHLADSVAG SVKVGGEAGP SVTLPCHYSG AVTSMCWNRG
60 70 80 90 100
SCSLFTCQNG IVWTNGTHVT YRKDTRYKLL GDLSRRDVSL TIENTAVSDS
110 120 130 140 150
GVYCCRVEHR GWFNDMKITV SLEIVPPKVT TTPIVTTVPT VTTVRTSTTV
160 170 180 190 200
PTTTTVPTTT VPTTMSIPTT TTVLTTMTVS TTTSVPTTTS IPTTTSVPVT
210 220 230 240 250
TTVSTFVPPM PLPRQNHEPV ATSPSSPQPA ETHPTTLQGA IRREPTSSPL
260 270 280 290 300
YSYTTDGNDT VTESSDGLWN NNQTQLFLEH SLLTANTTKG IYAGVCISVL
310 320 330 340 350
VLLALLGVII AKKYFFKKEV QQLSVSFSSL QIKALQNAVE KEVQAEDNIY

IENSLYATD
Length:359
Mass (Da):38,720
Last modified:August 30, 2005 - v2
Checksum:iD24BA2C932903ECA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti174 – 1741L → P in AAC39862 (PubMed:9658108).Curated

Polymorphismi

Infection by hepatitis A virus (HAV) protects individuals from atopy if they carry insertion of the variants Met-Thr-Thr-Val-Pro-157 and Met-Thr-Thr-Thr-Val-Pro-157. Modernisation has led to a reduction in HAV seroprevalence and thus, may be, to an increase of expression of atopy, such as asthma, allergic rhinitis and atopic dermatitis. Allelic variation does not affect HAV-infection rates in Caucasians, Asians and African Americans.1 Publication

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti51 – 511S → L.
Corresponds to variant rs2270922 [ dbSNP | Ensembl ].
VAR_056080
Natural varianti157 – 1571P → PMTTTVP.
VAR_023321
Natural varianti157 – 1571P → PMTTVP.3 Publications
VAR_023322
Natural varianti195 – 1951Missing .1 Publication
VAR_023323

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF043724 mRNA. Translation: AAC39862.1.
CR457114 mRNA. Translation: CAG33395.1.
AC026777 Genomic DNA. No translation available.
BC013325 mRNA. Translation: AAH13325.1.
RefSeqiNP_001166864.1. NM_001173393.2.
NP_001295085.1. NM_001308156.1.
NP_036338.2. NM_012206.3.
UniGeneiHs.129711.

Genome annotation databases

EnsembliENST00000339252; ENSP00000344844; ENSG00000113249.
ENST00000523175; ENSP00000427898; ENSG00000113249.
GeneIDi26762.
KEGGihsa:26762.
UCSCiuc003lwi.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF043724 mRNA. Translation: AAC39862.1.
CR457114 mRNA. Translation: CAG33395.1.
AC026777 Genomic DNA. No translation available.
BC013325 mRNA. Translation: AAH13325.1.
RefSeqiNP_001166864.1. NM_001173393.2.
NP_001295085.1. NM_001308156.1.
NP_036338.2. NM_012206.3.
UniGeneiHs.129711.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5DZOX-ray1.30A22-127[»]
5F70X-ray1.80A21-123[»]
ProteinModelPortaliQ96D42.
SMRiQ96D42. Positions 22-129.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117812. 1 interaction.
IntActiQ96D42. 1 interaction.
MINTiMINT-2872051.
STRINGi9606.ENSP00000344844.

PTM databases

iPTMnetiQ96D42.
PhosphoSiteiQ96D42.

Polymorphism and mutation databases

BioMutaiHAVCR1.
DMDMi73919877.

Proteomic databases

MaxQBiQ96D42.
PaxDbiQ96D42.
PeptideAtlasiQ96D42.
PRIDEiQ96D42.

Protocols and materials databases

DNASUi26762.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000339252; ENSP00000344844; ENSG00000113249.
ENST00000523175; ENSP00000427898; ENSG00000113249.
GeneIDi26762.
KEGGihsa:26762.
UCSCiuc003lwi.3. human.

Organism-specific databases

CTDi26762.
GeneCardsiHAVCR1.
HGNCiHGNC:17866. HAVCR1.
MalaCardsiHAVCR1.
MIMi606518. gene.
neXtProtiNX_Q96D42.
PharmGKBiPA134924567.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IZDR. Eukaryota.
ENOG410YSF7. LUCA.
InParanoidiQ96D42.
OrthoDBiEOG7PP57H.
PhylomeDBiQ96D42.
TreeFamiTF336163.

Miscellaneous databases

ChiTaRSiHAVCR1. human.
GeneWikiiHAVCR1.
GenomeRNAii26762.
PROiQ96D42.
SOURCEiSearch...

Gene expression databases

BgeeiQ96D42.
CleanExiHS_HAVCR1.
ExpressionAtlasiQ96D42. baseline and differential.
GenevisibleiQ96D42. HS.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003006. Ig/MHC_CS.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]
PfamiPF07686. V-set. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS00290. IG_MHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The human homolog of HAVcr-1 codes for a hepatitis A virus cellular receptor."
    Feigelstock D., Thompson P., Mattoo P., Zhang Y., Kaplan G.G.
    J. Virol. 72:6621-6628(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, FUNCTION (MICROBIAL INFECTION), INTERACTION WITH HEPATITIS A VIRUS CAPSID PROTEINS.
    Tissue: Liver.
  2. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
    Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
    Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT MET-THR-THR-VAL-PRO-157 INS.
  3. "The DNA sequence and comparative analysis of human chromosome 5."
    Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S., Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M., She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S.
    , Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R., Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J., Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A., Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M.
    Nature 431:268-274(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT MET-THR-THR-VAL-PRO-157 INS.
    Tissue: Kidney.
  5. "Immunoglobulin A (IgA) is a natural ligand of hepatitis A virus cellular receptor 1 (HAVCR1), and the association of IgA with HAVCR1 enhances virus-receptor interactions."
    Tami C., Silberstein E., Manangeeswaran M., Freeman G.J., Umetsu S.E., DeKruyff R.H., Umetsu D.T., Kaplan G.G.
    J. Virol. 81:3437-3446(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH IMMUNOGLUBULIN A.
  6. Cited for: FUNCTION, INDUCTION.
  7. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  8. Cited for: FUNCTION (MICROBIAL INFECTION).
  9. "The TIM and TAM families of phosphatidylserine receptors mediate dengue virus entry."
    Meertens L., Carnec X., Lecoin M.P., Ramdasi R., Guivel-Benhassine F., Lew E., Lemke G., Schwartz O., Amara A.
    Cell Host Microbe 12:544-557(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION (MICROBIAL INFECTION).
  10. Cited for: POLYMORPHISM, VARIANTS MET-THR-THR-THR-VAL-PRO-157 INS AND THR-195 DEL.
  11. Umetsu D.T.
    Submitted (SEP-2005) to UniProtKB
    Cited for: VARIANT MET-THR-THR-VAL-PRO-157 INS.

Entry informationi

Entry nameiHAVR1_HUMAN
AccessioniPrimary (citable) accession number: Q96D42
Secondary accession number(s): O43656
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: August 30, 2005
Last modified: July 6, 2016
This is version 126 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

The extracellular part of the protein can be cleaved and detected in urine and is in correlation with the expression in the kidney.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.