Reviewed, UniProtKB/Swiss-Prot O00241 (SIRB1_HUMAN)

Names and origin

Protein names

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 names

Name:

SIRPB1

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	398 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence 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	Interacts with TYROBP. This interaction results in the recruitment of SYK. Ref.5 Ref.6
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 Ref.7
Sequence similarities	Contains 2 Ig-like C1-type (immunoglobulin-like) domains. Contains 1 Ig-like V-type (immunoglobulin-like) domain.

Ontologies

Keywords
Cellular component	Membrane
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Immunoglobulin domain Repeat Signal Transmembrane
PTM	Disulfide bond Glycoprotein
Technical term	3D-structure
Gene Ontology (GO)
Biological process	cell surface receptor linked signal transduction Ref.1 Traceable author statement. Source: ProtInc
Cellular component	integral to plasma membrane Ref.1 Traceable author statement. Source: ProtInc
Complete GO annotation...

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 Q5TFQ8-1.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 26

26

Potential

Chain

27 – 398

372

Signal-regulatory protein beta-1

PRO_0000014956

Regions

Topological domain

27 – 371

345

Extracellular Potential

Transmembrane

372 – 392

21

Potential

Topological domain

393 – 398

6

Cytoplasmic Potential

Domain

27 – 136

110

Ig-like V-type

Domain

147 – 246

100

Ig-like C1-type 1

Domain

253 – 347

95

Ig-like C1-type 2

Amino acid modifications

Glycosylation

244

1

N-linked (GlcNAc...) Ref.7

Glycosylation

269

1

N-linked (GlcNAc...) Potential

Glycosylation

291

1

N-linked (GlcNAc...) Potential

Disulfide bond

54 ↔ 120

Ref.8

Disulfide bond

169 ↔ 227

Potential

Disulfide bond

272 ↔ 320

Potential

Natural variations

Alternative sequence

145 – 361

217

Missing in isoform 2.

VSP_007026

Natural variant

23

1

R → G: dbSNP rs1535882.

VAR_028789

Natural variant

53

1

R → H: dbSNP rs2746603.

VAR_028790

Natural variant

229

1

M → I: dbSNP rs2253427. Ref.3

VAR_028791

Natural variant

363

1

P → A: dbSNP rs2243603. Ref.3

VAR_028792

Experimental info

Sequence conflict

102

1

D → N in CAA71404. Ref.1

Sequence conflict

106

1

S → R in BAG36297. Ref.2

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

398

Helix Strand Turn

Details...

Beta strand

40 – 45

6

Beta strand

50 – 52

3

Beta strand

55 – 57

3

Beta strand

66 – 70

5

Beta strand

76 – 83

8

Beta strand

87 – 89

3

Beta strand

95 – 99

5

Beta strand

105 – 109

5

Turn

112 – 114

3

Beta strand

116 – 124

9

Beta strand

127 – 129

3

Beta strand

131 – 135

5

Beta strand

139 – 144

6

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified March 28, 2003. Version 3. Checksum: A2AA08FEEB2BC52B	FASTA	398	43,255
	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 VHSQVICEMA 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 HEPALAPTAP LLVALLLGPK LLLVVGVSAI YICWKQKA
	Isoform 2. Checksum: 9EF2115ADB6E8CBC	FASTA	181	19,420
	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 LSVREPALAP TAPLLVALLL GPKLLLVVGV SAIYICWKQK A
	Isoform 3. See Q5TFQ8.	FASTA	–	–

References

	« Hide 'large scale' referencesShow '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: 9062191] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). 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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). 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: 11780052] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANTS ILE-229 AND ALA-363.
[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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). 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: 10940905] [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: 10604985] [Abstract] Cited for: INTERACTION WITH TYROBP, GLYCOSYLATION, TISSUE SPECIFICITY.
[7]	"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: 16335952] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-244, MASS SPECTROMETRY. Tissue: Plasma.
[8]	"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: 18657508] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.19 ANGSTROMS) OF 30-148, DISULFIDE BOND.
[9]	"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

EMBLGenBankDDBJ

Y10376 mRNA. Translation: CAA71404.1.
AK313517 mRNA. Translation: BAG36297.1.
AL049634, AL138804 Genomic DNA. Translation: CAI21864.1.
AL138804, AL049634 Genomic DNA. Translation: CAI16688.1.
BC025286 mRNA. Translation: AAH25286.1.
BC075835 mRNA. Translation: AAH75835.1.

IPI

IPI00299724.
IPI00515053.

RefSeq

NP_001077379.1.
NP_006056.2.

UniGene

Hs.709487
Hs.710882

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2D9C	NMR	-	A	32-154	[»]
2JJU	X-ray	1.19	A/B	30-148	[»]

ModBase

Search...

Proteomic databases

PRIDE

O00241.

Genome annotation databases

Ensembl

ENSG00000101307. Homo sapiens. [Contig view]

GeneID

10326.

KEGG

hsa:10326.

Organism-specific databases

GeneCards

GC20M001491.

H-InvDB

HIX0015568.

HGNC

HGNC:15928. SIRPB1.

MIM

603889. gene.

PharmGKB

PA38051.

GenAtlas

Search...

Phylogenomic databases

HOGENOM

O00241.

HOVERGEN

O00241.

Gene expression databases

ArrayExpress

O00241.

Bgee

O00241.

CleanEx

HS_SIRPB1.

GermOnline

ENSG00000101307. Homo sapiens.

Family and domain databases

InterPro

IPR007110. Ig-like.
IPR013783. Ig-like_fold.
IPR003597. Ig_C1-set.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
[Graphical view]

Gene3D

G3DSA:2.60.40.10. Ig-like_fold. 3 hits.

Pfam

PF07654. C1-set. 2 hits.
PF07686. V-set. 1 hit.
[Graphical view]

SMART

SM00409. IG. 1 hit.
SM00407. IGc1. 2 hits.
[Graphical view]

PROSITE

PS50835. IG_LIKE. 3 hits.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

39145.

SOURCE

Search...

Entry information

Entry name

SIRB1_HUMAN

Accession

Primary (citable) accession number: O00241
Secondary accession number(s): A6NLM2 , B2R8V0, Q5TFR0, Q8TB12, Q9H1U5, Q9Y4V0

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 19, 2002
Last sequence update:	March 28, 2003
Last modified:	May 26, 2009
This is version 91 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)