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P29016

- CD1B_HUMAN

UniProt

P29016 - CD1B_HUMAN

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Protein
T-cell surface glycoprotein CD1b
Gene
CD1B
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and presents them to T-cell receptors on natural killer T-cells.2 Publications

GO - Molecular functioni

  1. beta-2-microglobulin binding Source: RefGenome
  2. endogenous lipid antigen binding Source: RefGenome
  3. exogenous lipid antigen binding Source: RefGenome
  4. lipopeptide binding Source: RefGenome
  5. protein binding Source: IntAct

GO - Biological processi

  1. antigen processing and presentation, exogenous lipid antigen via MHC class Ib Source: RefGenome
  2. immune response Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Adaptive immunity, Immunity

Names & Taxonomyi

Protein namesi
Recommended name:
T-cell surface glycoprotein CD1b
Alternative name(s):
CD_antigen: CD1b
Gene namesi
Name:CD1B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 1

Organism-specific databases

HGNCiHGNC:1635. CD1B.

Subcellular locationi

Cell membrane; Single-pass type I membrane protein. Endosome membrane. Lysosome membrane
Note: Subject to intracellular trafficking between the cell membrane, endosomes and lysosomes. Localizes to cell surface lipid rafts.3 Publications

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini18 – 303286Extracellular Reviewed prediction
Add
BLAST
Transmembranei304 – 32421Helical; Reviewed prediction
Add
BLAST
Topological domaini325 – 3339Cytoplasmic Reviewed prediction

GO - Cellular componenti

  1. endosome membrane Source: UniProtKB-SubCell
  2. integral component of membrane Source: ProtInc
  3. lysosomal membrane Source: UniProtKB-SubCell
  4. plasma membrane Source: RefGenome
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Endosome, Lysosome, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi329 – 3302YQ → AA: Strongly reduced internalization and trafficking to endosomes. 1 Publication

Organism-specific databases

PharmGKBiPA26194.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1717 Reviewed prediction
Add
BLAST
Chaini18 – 333316T-cell surface glycoprotein CD1b
PRO_0000014579Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi38 – 381N-linked (GlcNAc...)1 Publication
Glycosylationi75 – 751N-linked (GlcNAc...)2 Publications
Disulfide bondi120 ↔ 1843 Publications
Glycosylationi146 – 1461N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi149 ↔ 1633 Publications
Disulfide bondi224 ↔ 2793 Publications
Glycosylationi258 – 2581N-linked (GlcNAc...) Reviewed prediction

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiP29016.
PaxDbiP29016.
PRIDEiP29016.

PTM databases

PhosphoSiteiP29016.

Expressioni

Tissue specificityi

Expressed on cortical thymocytes, on certain T-cell leukemias, and in various other tissues.

Gene expression databases

ArrayExpressiP29016.
BgeeiP29016.
CleanExiHS_CD1B.
GenevestigatoriP29016.

Organism-specific databases

HPAiHPA021824.

Interactioni

Subunit structurei

Heterodimer with B2M (beta-2-microglobulin). Interacts with saposin C.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
B2MP617693EBI-1033762,EBI-714718

Protein-protein interaction databases

BioGridi107348. 1 interaction.
IntActiP29016. 1 interaction.
MINTiMINT-242013.
STRINGi9606.ENSP00000357150.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi27 – 3812
Beta strandi41 – 5010
Beta strandi53 – 597
Turni60 – 634
Beta strandi64 – 674
Turni70 – 756
Helixi78 – 10225
Turni103 – 1075
Beta strandi110 – 12213
Beta strandi128 – 1369
Beta strandi139 – 1457
Beta strandi148 – 1514
Helixi153 – 1553
Helixi156 – 16611
Helixi170 – 18112
Helixi183 – 19412
Helixi196 – 1994
Beta strandi206 – 2138
Beta strandi219 – 23214
Beta strandi234 – 2407
Beta strandi254 – 2563
Turni257 – 2593
Beta strandi261 – 27010
Helixi271 – 2733
Beta strandi277 – 2837
Helixi284 – 2863
Beta strandi291 – 2966

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1GZPX-ray2.80A18-295[»]
1GZQX-ray2.26A18-295[»]
1UQSX-ray3.10A18-295[»]
2H26X-ray1.80A19-298[»]
3OV6X-ray2.50A27-295[»]
3T8XX-ray1.90A/C19-298[»]
ProteinModelPortaliP29016.
SMRiP29016. Positions 22-298.

Miscellaneous databases

EvolutionaryTraceiP29016.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini185 – 295111Ig-like
Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi329 – 3324Internalization signal

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG79438.
HOGENOMiHOG000111666.
HOVERGENiHBG004453.
InParanoidiP29016.
KOiK06448.
OMAiWAQTQGS.
PhylomeDBiP29016.
TreeFamiTF336723.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.30.500.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR011161. MHC_I-like_Ag-recog.
IPR011162. MHC_I/II-like_Ag-recog.
[Graphical view]
PfamiPF07654. C1-set. 1 hit.
[Graphical view]
SMARTiSM00407. IGc1. 1 hit.
[Graphical view]
SUPFAMiSSF54452. SSF54452. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: P29016-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

MLLLPFQLLA VLFPGGNSEH AFQGPTSFHV IQTSSFTNST WAQTQGSGWL    50
DDLQIHGWDS DSGTAIFLKP WSKGNFSDKE VAELEEIFRV YIFGFAREVQ 100
DFAGDFQMKY PFEIQGIAGC ELHSGGAIVS FLRGALGGLD FLSVKNASCV 150
PSPEGGSRAQ KFCALIIQYQ GIMETVRILL YETCPRYLLG VLNAGKADLQ 200
RQVKPEAWLS SGPSPGPGRL QLVCHVSGFY PKPVWVMWMR GEQEQQGTQL 250
GDILPNANWT WYLRATLDVA DGEAAGLSCR VKHSSLEGQD IILYWRNPTS 300
IGSIVLAIIV PSLLLLLCLA LWYMRRRSYQ NIP 333
Length:333
Mass (Da):36,939
Last modified:December 1, 1992 - v1
Checksum:i7D02B670D4DE8CC7
GO
Isoform 2 (identifier: P29016-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     242-296: Missing.

Show »
Length:278
Mass (Da):30,740
Checksum:i087FD5FF65921339
GO

Sequence cautioni

The sequence CAI10852.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei242 – 29655Missing in isoform 2.
VSP_016911Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M22173
, M22168, M22169, M22170, M22171, M22172 Genomic DNA. Translation: AAA51940.1.
M28826 mRNA. Translation: AAA51939.1.
AL121986 Genomic DNA. Translation: CAI10852.1. Sequence problems.
AL121986 Genomic DNA. Translation: CAI10853.1.
BC069481 mRNA. Translation: AAH69481.1.
BC074747 mRNA. Translation: AAH74747.1.
BC104216 mRNA. Translation: AAI04217.1.
BC104217 mRNA. Translation: AAI04218.1.
M14665 Genomic DNA. Translation: AAA51936.1.
CCDSiCCDS1176.1. [P29016-1]
PIRiB39957. HLHUCB.
RefSeqiNP_001755.1. NM_001764.2. [P29016-1]
UniGeneiHs.1310.

Genome annotation databases

EnsembliENST00000368168; ENSP00000357150; ENSG00000158485. [P29016-1]
GeneIDi910.
KEGGihsa:910.
UCSCiuc001frw.3. human. [P29016-2]
uc001frx.3. human. [P29016-1]

Polymorphism databases

DMDMi115962.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M22173
, M22168 , M22169 , M22170 , M22171 , M22172 Genomic DNA. Translation: AAA51940.1 .
M28826 mRNA. Translation: AAA51939.1 .
AL121986 Genomic DNA. Translation: CAI10852.1 . Sequence problems.
AL121986 Genomic DNA. Translation: CAI10853.1 .
BC069481 mRNA. Translation: AAH69481.1 .
BC074747 mRNA. Translation: AAH74747.1 .
BC104216 mRNA. Translation: AAI04217.1 .
BC104217 mRNA. Translation: AAI04218.1 .
M14665 Genomic DNA. Translation: AAA51936.1 .
CCDSi CCDS1176.1. [P29016-1 ]
PIRi B39957. HLHUCB.
RefSeqi NP_001755.1. NM_001764.2. [P29016-1 ]
UniGenei Hs.1310.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1GZP X-ray 2.80 A 18-295 [» ]
1GZQ X-ray 2.26 A 18-295 [» ]
1UQS X-ray 3.10 A 18-295 [» ]
2H26 X-ray 1.80 A 19-298 [» ]
3OV6 X-ray 2.50 A 27-295 [» ]
3T8X X-ray 1.90 A/C 19-298 [» ]
ProteinModelPortali P29016.
SMRi P29016. Positions 22-298.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 107348. 1 interaction.
IntActi P29016. 1 interaction.
MINTi MINT-242013.
STRINGi 9606.ENSP00000357150.

PTM databases

PhosphoSitei P29016.

Polymorphism databases

DMDMi 115962.

Proteomic databases

MaxQBi P29016.
PaxDbi P29016.
PRIDEi P29016.

Protocols and materials databases

DNASUi 910.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000368168 ; ENSP00000357150 ; ENSG00000158485 . [P29016-1 ]
GeneIDi 910.
KEGGi hsa:910.
UCSCi uc001frw.3. human. [P29016-2 ]
uc001frx.3. human. [P29016-1 ]

Organism-specific databases

CTDi 910.
GeneCardsi GC01M158297.
HGNCi HGNC:1635. CD1B.
HPAi HPA021824.
MIMi 188360. gene.
neXtProti NX_P29016.
PharmGKBi PA26194.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG79438.
HOGENOMi HOG000111666.
HOVERGENi HBG004453.
InParanoidi P29016.
KOi K06448.
OMAi WAQTQGS.
PhylomeDBi P29016.
TreeFami TF336723.

Miscellaneous databases

EvolutionaryTracei P29016.
GenomeRNAii 910.
NextBioi 3754.
PROi P29016.
SOURCEi Search...

Gene expression databases

ArrayExpressi P29016.
Bgeei P29016.
CleanExi HS_CD1B.
Genevestigatori P29016.

Family and domain databases

Gene3Di 2.60.40.10. 1 hit.
3.30.500.10. 1 hit.
InterProi IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR011161. MHC_I-like_Ag-recog.
IPR011162. MHC_I/II-like_Ag-recog.
[Graphical view ]
Pfami PF07654. C1-set. 1 hit.
[Graphical view ]
SMARTi SM00407. IGc1. 1 hit.
[Graphical view ]
SUPFAMi SSF54452. SSF54452. 1 hit.
PROSITEi PS50835. IG_LIKE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Structure and expression of the human thymocyte antigens CD1a, CD1b, and CD1c."
    Martin L.H., Calabi F., Lefebvre F.-A., Bilsland C.A.G., Milstein C.
    Proc. Natl. Acad. Sci. U.S.A. 84:9189-9193(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Expression of cDNA clones encoding the thymocyte antigens CD1a, b, c demonstrates a hierarchy of exclusion in fibroblasts."
    Aruffo A., Seed B.
    J. Immunol. 143:1723-1730(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  3. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [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] (ISOFORM 1).
    Tissue: Lung.
  5. "Isolation of CD1 genes: a family of major histocompatibility complex-related differentiation antigens."
    Martin L.H., Calabi F., Milstein C.
    Proc. Natl. Acad. Sci. U.S.A. 83:9154-9158(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 203-295.
  6. "The alphabeta T cell response to self-glycolipids shows a novel mechanism of CD1b loading and a requirement for complex oligosaccharides."
    Shamshiev A., Donda A., Prigozy T.I., Mori L., Chigorno V., Benedict C.A., Kappos L., Sonnino S., Kronenberg M., De Libero G.
    Immunity 13:255-264(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, MUTAGENESIS OF 329-TYR-GLN-330, SUBCELLULAR LOCATION.
  7. "Human CD1b and CD1c isoforms survey different intracellular compartments for the presentation of microbial lipid antigens."
    Briken V., Jackman R.M., Watts G.F.M., Rogers R.A., Porcelli S.A.
    J. Exp. Med. 192:281-288(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  8. Cited for: FUNCTION, INTERACTION WITH SAPOSIN C, SUBCELLULAR LOCATION.
  9. "Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins."
    Wollscheid B., Bausch-Fluck D., Henderson C., O'Brien R., Bibel M., Schiess R., Aebersold R., Watts J.D.
    Nat. Biotechnol. 27:378-386(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-75.
    Tissue: Leukemic T-cell.
  10. Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 18-295 IN COMPLEXES WITH B2M; GANGLIOSIDE GM2 AND PHOSPHATIDYLINOSITOL, DISULFIDE BONDS.
  11. Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF 18-295 IN COMPLEX WITH B2M AND GLUCOSE MONOMYCOLATE, DISULFIDE BONDS.
  12. "Endogenous phosphatidylcholine and a long spacer ligand stabilize the lipid-binding groove of CD1b."
    Garcia-Alles L.F., Versluis K., Maveyraud L., Vallina A.T., Sansano S., Bello N.F., Gober H.-J., Guillet V., de la Salle H., Puzo G., Mori L., Heck A.J.R., De Libero G., Mourey L.
    EMBO J. 25:3684-3692(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 19-298 IN COMPLEX WITH B2M; PHOSPHATIDYLCHOLINE AND SPACER LIGAND, GLYCOSYLATION AT ASN-38 AND ASN-75, IDENTIFICATION BY MASS SPECTROMETRY, DISULFIDE BONDS.

Entry informationi

Entry nameiCD1B_HUMAN
AccessioniPrimary (citable) accession number: P29016
Secondary accession number(s): Q5TDK9, Q5TDL0, Q9UMM2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: July 9, 2014
This is version 137 of the entry and version 1 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

During protein synthesis and maturation, CD1 family members bind endogenous lipids that are replaced by lipid or glycolipid antigens when the proteins are internalized and pass through endosomes or lysosomes, before trafficking back to the cell surface. Interaction with saposin C is required for the loading of bacterial lipid antigens onto CD1B in the lysosome.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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