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O00241 (SIRB1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 136. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (7) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Signal-regulatory protein beta-1

Short name=SIRP-beta-1
Alternative name(s):
CD172 antigen-like family member B
CD_antigen=CD172b
Gene names
Name:SIRPB1
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length398 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Subunit structure

Homodimer; disulfide-linked. Interacts with TYROBP. This interaction results in the recruitment of SYK. Ref.5 Ref.6 Ref.7 Ref.9

Subcellular location

Membrane; Single-pass type I membrane protein.

Tissue specificity

Detected in monocytes and dendritic cells. Ref.6

Post-translational modification

N-glycosylated. Ref.6

Sequence similarities

Contains 2 Ig-like C1-type (immunoglobulin-like) domains.

Contains 1 Ig-like V-type (immunoglobulin-like) domain.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

TYROBPO439144EBI-2615458,EBI-2214794

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O00241-1)

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.
Isoform 2 (identifier: O00241-2)

The sequence of this isoform differs from the canonical sequence as follows:
     145-361: Missing.
Note: No experimental confirmation available.
Isoform 3 (identifier: Q5TFQ8-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2929 Potential
Chain30 – 398369Signal-regulatory protein beta-1
PRO_0000014956

Regions

Topological domain30 – 371342Extracellular Potential
Transmembrane372 – 39221Helical; Potential
Topological domain393 – 3986Cytoplasmic Potential
Domain30 – 136107Ig-like V-type
Domain147 – 246100Ig-like C1-type 1
Domain253 – 34795Ig-like C1-type 2

Amino acid modifications

Glycosylation2441N-linked (GlcNAc...) Ref.8
Glycosylation2691N-linked (GlcNAc...) Potential
Glycosylation2911N-linked (GlcNAc...) Potential
Disulfide bond54 ↔ 120 Ref.7 Ref.9
Disulfide bond169 ↔ 227 Potential
Disulfide bond320Interchain Ref.7 Ref.9

Natural variations

Alternative sequence145 – 361217Missing in isoform 2.
VSP_007026
Natural variant231R → G.
Corresponds to variant rs1535882 [ dbSNP | Ensembl ].
VAR_028789
Natural variant531R → H.
Corresponds to variant rs2746603 [ dbSNP | Ensembl ].
VAR_028790
Natural variant2291I → M. Ref.1 Ref.2
Corresponds to variant rs2253427 [ dbSNP | Ensembl ].
VAR_028791
Natural variant3631A → P. Ref.1 Ref.2 Ref.4
Corresponds to variant rs2243603 [ dbSNP | Ensembl ].
VAR_028792

Experimental info

Sequence conflict1021D → N in CAA71404. Ref.1
Sequence conflict1061S → R in BAG36297. Ref.2

Secondary structure

........................... 398
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 2, 2010. Version 5.
Checksum: C9C5E759514E212E

FASTA39843,211
        10         20         30         40         50         60 
MPVPASWPHL PSPFLLMTLL LGRLTGVAGE DELQVIQPEK SVSVAAGESA TLRCAMTSLI 

        70         80         90        100        110        120 
PVGPIMWFRG AGAGRELIYN QKEGHFPRVT TVSELTKRNN LDFSISISNI TPADAGTYYC 

       130        140        150        160        170        180 
VKFRKGSPDD VEFKSGAGTE LSVRAKPSAP VVSGPAVRAT PEHTVSFTCE SHGFSPRDIT 

       190        200        210        220        230        240 
LKWFKNGNEL SDFQTNVDPA GDSVSYSIHS TARVVLTRGD VHSQVICEIA HITLQGDPLR 

       250        260        270        280        290        300 
GTANLSEAIR VPPTLEVTQQ PMRAENQANV TCQVSNFYPR GLQLTWLENG NVSRTETAST 

       310        320        330        340        350        360 
LIENKDGTYN WMSWLLVNTC AHRDDVVLTC QVEHDGQQAV SKSYALEISA HQKEHGSDIT 

       370        380        390 
HEAALAPTAP LLVALLLGPK LLLVVGVSAI YICWKQKA 

« Hide

Isoform 2 [UniParc].

Checksum: 9EF21141C1DF3CBC
Show »

FASTA18119,394
Isoform 3 [UniParc].

See Q5TFQ8.

References

« Hide 'large scale' references
[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. expand/collapse author list , 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. expand/collapse author list , 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]"Association of signal-regulatory proteins beta with KARAP/DAP-12."
Tomasello E., Cant C., Buehring H.-J., Vely F., Andre P., Seiffert M., Ullrich A., Vivier E.
Eur. J. Immunol. 30:2147-2156(2000) [PubMed] [Europe PMC] [Abstract]
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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
CCDSCCDS13019.1. [O00241-1]
CCDS42850.1. [O00241-2]
RefSeqNP_001077379.1. NM_001083910.2. [O00241-2]
NP_006056.2. NM_006065.3. [O00241-1]
UniGeneHs.664861.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2D9CNMR-A32-154[»]
2JJUX-ray1.19A/B30-148[»]
ProteinModelPortalO00241.
SMRO00241. Positions 30-347.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid115609. 3 interactions.
IntActO00241. 3 interactions.
STRING9606.ENSP00000279477.

PTM databases

PhosphoSiteO00241.

Proteomic databases

PaxDbO00241.
PRIDEO00241.

Protocols and materials databases

DNASU10326.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000381603; ENSP00000371016; ENSG00000101307. [O00241-2]
ENST00000381605; ENSP00000371018; ENSG00000101307. [O00241-1]
GeneID10326.
KEGGhsa:10326.
UCSCuc002wfk.4. human. [O00241-2]
uc010gai.3. human. [O00241-1]

Organism-specific databases

CTD10326.
GeneCardsGC20M001544.
HGNCHGNC:15928. SIRPB1.
HPAHPA047463.
MIM603889. gene.
neXtProtNX_O00241.
PharmGKBPA38051.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG291387.
HOVERGENHBG056632.
InParanoidO00241.
KOK06551.
OrthoDBEOG7CG6ZQ.
PhylomeDBO00241.
TreeFamTF341862.

Enzyme and pathway databases

ReactomeREACT_111155. Cell-Cell communication.
REACT_6900. Immune System.

Gene expression databases

ArrayExpressO00241.
BgeeO00241.
CleanExHS_SIRPB1.
GenevestigatorO00241.

Family and domain databases

Gene3D2.60.40.10. 3 hits.
InterProIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]
PfamPF07654. C1-set. 2 hits.
PF07686. V-set. 1 hit.
[Graphical view]
SMARTSM00409. IG. 1 hit.
SM00407. IGc1. 2 hits.
[Graphical view]
PROSITEPS50835. IG_LIKE. 3 hits.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceO00241.
GeneWikiSIRPB1.
GenomeRNAi10326.
NextBio39145.
PROO00241.
SOURCESearch...

Entry information

Entry nameSIRB1_HUMAN
AccessionPrimary (citable) accession number: O00241
Secondary accession number(s): A6NLM2 expand/collapse secondary AC list , B2R8V0, Q5TFQ9, Q5TFR0, Q8TB12, Q9H1U5, Q9Y4V0
Entry history
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: November 2, 2010
Last modified: July 9, 2014
This is version 136 of the entry and version 5 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 20

Human chromosome 20: entries, gene names and cross-references to MIM

Human cell differentiation molecules

CD nomenclature of surface proteins of human leucocytes and list of entries