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O00241

- SIRB1_HUMAN

UniProt

O00241 - SIRB1_HUMAN

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Protein

Signal-regulatory protein beta-1

Gene
SIRPB1
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Immunoglobulin-like cell surface receptor involved in the negative regulation of receptor tyrosine kinase-coupled signaling processes. Participates also in the recruitment of tyrosine kinase SYK.

GO - Molecular functioni

  1. protein binding Source: IntAct

GO - Biological processi

  1. cell surface receptor signaling pathway Source: ProtInc
  2. innate immune response Source: Reactome
  3. signal transduction Source: ProtInc
Complete GO annotation...

Enzyme and pathway databases

ReactomeiREACT_147694. DAP12 interactions.
REACT_23916. Signal regulatory protein (SIRP) family interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
Signal-regulatory protein beta-1
Short name:
SIRP-beta-1
Alternative name(s):
CD172 antigen-like family member B
CD_antigen: CD172b
Gene namesi
Name:SIRPB1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 20

Organism-specific databases

HGNCiHGNC:15928. SIRPB1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini30 – 371342Extracellular Reviewed predictionAdd
BLAST
Transmembranei372 – 39221Helical; Reviewed predictionAdd
BLAST
Topological domaini393 – 3986Cytoplasmic Reviewed prediction

GO - Cellular componenti

  1. extracellular vesicular exosome Source: UniProt
  2. integral component of plasma membrane Source: ProtInc
  3. plasma membrane Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA38051.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2929 Reviewed predictionAdd
BLAST
Chaini30 – 398369Signal-regulatory protein beta-1PRO_0000014956Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi54 ↔ 1202 Publications
Disulfide bondi169 ↔ 227 Reviewed prediction
Glycosylationi244 – 2441N-linked (GlcNAc...)1 Publication
Glycosylationi269 – 2691N-linked (GlcNAc...) Reviewed prediction
Glycosylationi291 – 2911N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi320 – 320Interchain2 Publications

Post-translational modificationi

N-glycosylated.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO00241.
PRIDEiO00241.

PTM databases

PhosphoSiteiO00241.

Expressioni

Tissue specificityi

Detected in monocytes and dendritic cells.1 Publication

Gene expression databases

ArrayExpressiO00241.
BgeeiO00241.
CleanExiHS_SIRPB1.
GenevestigatoriO00241.

Organism-specific databases

HPAiHPA047463.

Interactioni

Subunit structurei

Homodimer; disulfide-linked. Interacts with TYROBP. This interaction results in the recruitment of SYK.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
TYROBPO439144EBI-2615458,EBI-2214794

Protein-protein interaction databases

BioGridi115609. 3 interactions.
IntActiO00241. 3 interactions.
STRINGi9606.ENSP00000279477.

Structurei

Secondary structure

1
398
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi40 – 456
Beta strandi50 – 523
Beta strandi55 – 573
Beta strandi65 – 695
Beta strandi76 – 849
Beta strandi89 – 913
Beta strandi95 – 995
Beta strandi105 – 1073
Helixi112 – 1143
Beta strandi116 – 1249
Beta strandi127 – 1293
Beta strandi131 – 1355
Beta strandi139 – 1446

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2D9CNMR-A32-154[»]
2JJUX-ray1.19A/B30-148[»]
ProteinModelPortaliO00241.
SMRiO00241. Positions 30-347.

Miscellaneous databases

EvolutionaryTraceiO00241.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini30 – 136107Ig-like V-typeAdd
BLAST
Domaini147 – 246100Ig-like C1-type 1Add
BLAST
Domaini253 – 34795Ig-like C1-type 2Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG291387.
HOVERGENiHBG056632.
InParanoidiO00241.
KOiK06551.
OrthoDBiEOG7CG6ZQ.
PhylomeDBiO00241.
TreeFamiTF341862.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]
PfamiPF07654. C1-set. 2 hits.
PF07686. V-set. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00407. IGc1. 2 hits.
[Graphical view]
PROSITEiPS50835. IG_LIKE. 3 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: O00241-1) [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

MPVPASWPHL PSPFLLMTLL LGRLTGVAGE DELQVIQPEK SVSVAAGESA    50
TLRCAMTSLI PVGPIMWFRG AGAGRELIYN QKEGHFPRVT TVSELTKRNN 100
LDFSISISNI TPADAGTYYC VKFRKGSPDD VEFKSGAGTE LSVRAKPSAP 150
VVSGPAVRAT PEHTVSFTCE SHGFSPRDIT LKWFKNGNEL SDFQTNVDPA 200
GDSVSYSIHS TARVVLTRGD VHSQVICEIA HITLQGDPLR GTANLSEAIR 250
VPPTLEVTQQ PMRAENQANV TCQVSNFYPR GLQLTWLENG NVSRTETAST 300
LIENKDGTYN WMSWLLVNTC AHRDDVVLTC QVEHDGQQAV SKSYALEISA 350
HQKEHGSDIT HEAALAPTAP LLVALLLGPK LLLVVGVSAI YICWKQKA 398
Length:398
Mass (Da):43,211
Last modified:November 2, 2010 - v5
Checksum:iC9C5E759514E212E
GO
Isoform 2 (identifier: O00241-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     145-361: Missing.

Note: No experimental confirmation available.

Show »
Length:181
Mass (Da):19,394
Checksum:i9EF21141C1DF3CBC
GO
Isoform 3 (identifier: Q5TFQ8-1) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q5TFQ8.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:398
Mass (Da):43,359
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti23 – 231R → G.
Corresponds to variant rs1535882 [ dbSNP | Ensembl ].
VAR_028789
Natural varianti53 – 531R → H.
Corresponds to variant rs2746603 [ dbSNP | Ensembl ].
VAR_028790
Natural varianti229 – 2291I → M.2 Publications
Corresponds to variant rs2253427 [ dbSNP | Ensembl ].
VAR_028791
Natural varianti363 – 3631A → P.3 Publications
Corresponds to variant rs2243603 [ dbSNP | Ensembl ].
VAR_028792

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei145 – 361217Missing in isoform 2. VSP_007026Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti102 – 1021D → N in CAA71404. 1 Publication
Sequence conflicti106 – 1061S → R in BAG36297. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y10376 mRNA. Translation: CAA71404.1.
AK313517 mRNA. Translation: BAG36297.1.
AL049634, AL138804 Genomic DNA. Translation: CAI21864.1.
AL049634, AL138804 Genomic DNA. Translation: CAI21865.1.
BC025286 mRNA. Translation: AAH25286.1.
BC075835 mRNA. Translation: AAH75835.1.
CCDSiCCDS13019.1. [O00241-1]
CCDS42850.1. [O00241-2]
RefSeqiNP_001077379.1. NM_001083910.2. [O00241-2]
NP_006056.2. NM_006065.3. [O00241-1]
UniGeneiHs.664861.

Genome annotation databases

EnsembliENST00000381603; ENSP00000371016; ENSG00000101307. [O00241-2]
ENST00000381605; ENSP00000371018; ENSG00000101307. [O00241-1]
GeneIDi10326.
KEGGihsa:10326.
UCSCiuc002wfk.4. human. [O00241-2]
uc010gai.3. human. [O00241-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Y10376 mRNA. Translation: CAA71404.1 .
AK313517 mRNA. Translation: BAG36297.1 .
AL049634 , AL138804 Genomic DNA. Translation: CAI21864.1 .
AL049634 , AL138804 Genomic DNA. Translation: CAI21865.1 .
BC025286 mRNA. Translation: AAH25286.1 .
BC075835 mRNA. Translation: AAH75835.1 .
CCDSi CCDS13019.1. [O00241-1 ]
CCDS42850.1. [O00241-2 ]
RefSeqi NP_001077379.1. NM_001083910.2. [O00241-2 ]
NP_006056.2. NM_006065.3. [O00241-1 ]
UniGenei Hs.664861.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2D9C NMR - A 32-154 [» ]
2JJU X-ray 1.19 A/B 30-148 [» ]
ProteinModelPortali O00241.
SMRi O00241. Positions 30-347.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 115609. 3 interactions.
IntActi O00241. 3 interactions.
STRINGi 9606.ENSP00000279477.

PTM databases

PhosphoSitei O00241.

Proteomic databases

PaxDbi O00241.
PRIDEi O00241.

Protocols and materials databases

DNASUi 10326.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000381603 ; ENSP00000371016 ; ENSG00000101307 . [O00241-2 ]
ENST00000381605 ; ENSP00000371018 ; ENSG00000101307 . [O00241-1 ]
GeneIDi 10326.
KEGGi hsa:10326.
UCSCi uc002wfk.4. human. [O00241-2 ]
uc010gai.3. human. [O00241-1 ]

Organism-specific databases

CTDi 10326.
GeneCardsi GC20M001544.
HGNCi HGNC:15928. SIRPB1.
HPAi HPA047463.
MIMi 603889. gene.
neXtProti NX_O00241.
PharmGKBi PA38051.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG291387.
HOVERGENi HBG056632.
InParanoidi O00241.
KOi K06551.
OrthoDBi EOG7CG6ZQ.
PhylomeDBi O00241.
TreeFami TF341862.

Enzyme and pathway databases

Reactomei REACT_147694. DAP12 interactions.
REACT_23916. Signal regulatory protein (SIRP) family interactions.

Miscellaneous databases

EvolutionaryTracei O00241.
GeneWikii SIRPB1.
GenomeRNAii 10326.
NextBioi 39145.
PROi O00241.
SOURCEi Search...

Gene expression databases

ArrayExpressi O00241.
Bgeei O00241.
CleanExi HS_SIRPB1.
Genevestigatori O00241.

Family and domain databases

Gene3Di 2.60.40.10. 3 hits.
InterProi IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view ]
Pfami PF07654. C1-set. 2 hits.
PF07686. V-set. 1 hit.
[Graphical view ]
SMARTi SM00409. IG. 1 hit.
SM00407. IGc1. 2 hits.
[Graphical view ]
PROSITEi PS50835. IG_LIKE. 3 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A family of proteins that inhibit signalling through tyrosine kinase receptors."
    Kharitonenkov A., Chen Z., Sures I., Wang H., Schilling J., Ullrich A.
    Nature 386:181-186(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANTS MET-229 AND PRO-363.
    Tissue: Placenta.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANTS MET-229 AND PRO-363.
    Tissue: Neutrophil.
  3. "The DNA sequence and comparative analysis of human chromosome 20."
    Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E.
    , Bridgeman A.M., Brown A.J., Buck D., Burrill W.D., Butler A.P., Carder C., Carter N.P., Chapman J.C., Clamp M., Clark G., Clark L.N., Clark S.Y., Clee C.M., Clegg S., Cobley V.E., Collier R.E., Connor R.E., Corby N.R., Coulson A., Coville G.J., Deadman R., Dhami P.D., Dunn M., Ellington A.G., Frankland J.A., Fraser A., French L., Garner P., Grafham D.V., Griffiths C., Griffiths M.N.D., Gwilliam R., Hall R.E., Hammond S., Harley J.L., Heath P.D., Ho S., Holden J.L., Howden P.J., Huckle E., Hunt A.R., Hunt S.E., Jekosch K., Johnson C.M., Johnson D., Kay M.P., Kimberley A.M., King A., Knights A., Laird G.K., Lawlor S., Lehvaeslaiho M.H., Leversha M.A., Lloyd C., Lloyd D.M., Lovell J.D., Marsh V.L., Martin S.L., McConnachie L.J., McLay K., McMurray A.A., Milne S.A., Mistry D., Moore M.J.F., Mullikin J.C., Nickerson T., Oliver K., Parker A., Patel R., Pearce T.A.V., Peck A.I., Phillimore B.J.C.T., Prathalingam S.R., Plumb R.W., Ramsay H., Rice C.M., Ross M.T., Scott C.E., Sehra H.K., Shownkeen R., Sims S., Skuce C.D., Smith M.L., Soderlund C., Steward C.A., Sulston J.E., Swann R.M., Sycamore N., Taylor R., Tee L., Thomas D.W., Thorpe A., Tracey A., Tromans A.C., Vaudin M., Wall M., Wallis J.M., Whitehead S.L., Whittaker P., Willey D.L., Williams L., Williams S.A., Wilming L., Wray P.W., Hubbard T., Durbin R.M., Bentley D.R., Beck S., Rogers J.
    Nature 414:865-871(2001) [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 2), VARIANT PRO-363.
    Tissue: Skin.
  5. Cited for: INTERACTION WITH TYROBP AND SYK.
  6. "Signal-regulatory protein beta 1 is a DAP12-associated activating receptor expressed in myeloid cells."
    Dietrich J., Cella M., Seiffert M., Buehring H.-J., Colonna M.
    J. Immunol. 164:9-12(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH TYROBP, GLYCOSYLATION, TISSUE SPECIFICITY.
  7. "SIRPbeta1 is expressed as a disulfide-linked homodimer in leukocytes and positively regulates neutrophil transepithelial migration."
    Liu Y., Soto I., Tong Q., Chin A., Buhring H.J., Wu T., Zen K., Parkos C.A.
    J. Biol. Chem. 280:36132-36140(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBUNIT, INTERCHAIN DISULFIDE BOND.
  8. "Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry."
    Liu T., Qian W.-J., Gritsenko M.A., Camp D.G. II, Monroe M.E., Moore R.J., Smith R.D.
    J. Proteome Res. 4:2070-2080(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-244.
    Tissue: Plasma.
  9. "Paired receptor specificity explained by structures of signal regulatory proteins alone and complexed with CD47."
    Hatherley D., Graham S.C., Turner J., Harlos K., Stuart D.I., Barclay A.N.
    Mol. Cell 31:266-277(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.19 ANGSTROMS) OF 30-148, DISULFIDE BOND.
  10. "Solution structure of the first Ig-like domain of signal-regulatory protein beta-1 (SIRP-beta-1)."
    RIKEN structural genomics initiative (RSGI)
    Submitted (DEC-2006) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 33-155.

Entry informationi

Entry nameiSIRB1_HUMAN
AccessioniPrimary (citable) accession number: O00241
Secondary accession number(s): A6NLM2
, B2R8V0, Q5TFQ9, Q5TFR0, Q8TB12, Q9H1U5, Q9Y4V0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: November 2, 2010
Last modified: September 3, 2014
This is version 137 of the entry and version 5 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

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 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  7. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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