P06127 (CD5_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
T-cell surface glycoprotein CD5

Alternative name(s):
Lymphocyte antigen T1/Leu-1
CD_antigen=CD5

Gene names

Name:	CD5
Synonyms:	LEU1

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	495 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	May act as a receptor in regulating T-cell proliferation.
Subunit structure	Interacts with CD72/LYB-2. Interacts with PTPN6/SHP-1 By similarity. Ref.7
Subcellular location	Cell membrane; Single-pass type I membrane protein.
Post-translational modification	Phosphorylated on tyrosine residues by LYN; this creates binding sites for PTPN6/SHP-1 By similarity.
Sequence similarities	Contains 3 SRCR domains.

Ontologies

Keywords
Cellular component	Cell membrane Membrane
Coding sequence diversity	Polymorphism
Domain	Repeat Signal Transmembrane Transmembrane helix
PTM	Disulfide bond Glycoprotein Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	T cell costimulation Inferred from electronic annotation. Source: Compara cell proliferation Non-traceable author statement Ref.1. Source: UniProtKB cell recognition Non-traceable author statement Ref.7. Source: UniProtKB
Cellular_component	external side of plasma membrane Inferred from electronic annotation. Source: Compara integral to plasma membrane Non-traceable author statement Ref.7. Source: UniProtKB
Molecular_function	scavenger receptor activity Inferred from electronic annotation. Source: InterPro transmembrane signaling receptor activity Non-traceable author statement Ref.1. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 24

24

Chain

25 – 495

471

T-cell surface glycoprotein CD5

PRO_0000033222

Regions

Topological domain

25 – 372

348

Extracellular Potential

Transmembrane

373 – 402

30

Helical; Potential

Topological domain

403 – 495

93

Cytoplasmic Potential

Domain

35 – 133

99

SRCR 1

Domain

159 – 268

110

SRCR 2

Domain

276 – 368

93

SRCR 3

Amino acid modifications

Modified residue

439

1

Phosphoserine Ref.8 Ref.9

Modified residue

453

1

Phosphotyrosine Ref.10

Modified residue

460

1

Phosphoserine Ref.8

Modified residue

483

1

Phosphoserine Ref.10

Modified residue

485

1

Phosphoserine Ref.10

Glycosylation

116

1

N-linked (GlcNAc...) Potential

Glycosylation

241

1

N-linked (GlcNAc...) Potential

Disulfide bond

44 ↔ 86

Ref.12

Disulfide bond

60 ↔ 125

Ref.12

Disulfide bond

81 ↔ 132

Ref.12

Disulfide bond

107 ↔ 117

Ref.12

Disulfide bond

201 ↔ 267

By similarity

Disulfide bond

244 ↔ 250

By similarity

Disulfide bond

285 ↔ 321

Ref.12

Disulfide bond

301 ↔ 360

Ref.12

Disulfide bond

316 ↔ 367

Ref.12

Disulfide bond

342 ↔ 350

Ref.12

Natural variations

Natural variant

224

1

P → L. Ref.4
Corresponds to variant rs2241002 [ dbSNP | Ensembl ].

VAR_020411

Natural variant

461

1

H → R. Ref.1 Ref.2 Ref.3 Ref.4 Ref.6 Ref.8
Corresponds to variant rs637186 [ dbSNP | Ensembl ].

VAR_024649

Natural variant

471

1

A → V. Ref.1 Ref.2 Ref.3 Ref.6
Corresponds to variant rs2229177 [ dbSNP | Ensembl ].

VAR_058203

Experimental info

Sequence conflict

289

1

V → E in BAF85387. Ref.4

Secondary structure

1

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495

Helix Strand Turn

Details...

Beta strand

35 – 37

3

Beta strand

39 – 42

4

Beta strand

45 – 52

8

Beta strand

55 – 58

4

Helix

75 – 77

3

Helix

78 – 83

6

Beta strand

86 – 88

3

Beta strand

90 – 94

5

Turn

101 – 103

3

Beta strand

104 – 110

7

Beta strand

117 – 119

3

Beta strand

122 – 124

3

Beta strand

126 – 132

7

Beta strand

275 – 280

6

Beta strand

286 – 295

10

Beta strand

298 – 301

4

Helix

310 – 318

9

Beta strand

323 – 331

9

Beta strand

339 – 341

3

Beta strand

344 – 346

3

Helix

347 – 349

3

Beta strand

354 – 356

3

Beta strand

362 – 367

6

Sequences

	Sequence		Length	Mass (Da)
	P06127 [UniParc]. Last modified November 30, 2010. Version 2. Checksum: 9131AEC9683EE1D3	FASTA	495	54,578
	10 20 30 40 50 60 MPMGSLQPLA TLYLLGMLVA SCLGRLSWYD PDFQARLTRS NSKCQGQLEV YLKDGWHMVC 70 80 90 100 110 120 SQSWGRSSKQ WEDPSQASKV CQRLNCGVPL SLGPFLVTYT PQSSIICYGQ LGSFSNCSHS 130 140 150 160 170 180 RNDMCHSLGL TCLEPQKTTP PTTRPPPTTT PEPTAPPRLQ LVAQSGGQHC AGVVEFYSGS 190 200 210 220 230 240 LGGTISYEAQ DKTQDLENFL CNNLQCGSFL KHLPETEAGR AQDPGEPREH QPLPIQWKIQ 250 260 270 280 290 300 NSSCTSLEHC FRKIKPQKSG RVLALLCSGF QPKVQSRLVG GSSICEGTVE VRQGAQWAAL 310 320 330 340 350 360 CDSSSARSSL RWEEVCREQQ CGSVNSYRVL DAGDPTSRGL FCPHQKLSQC HELWERNSYC 370 380 390 400 410 420 KKVFVTCQDP NPAGLAAGTV ASIILALVLL VVLLVVCGPL AYKKLVKKFR QKKQRQWIGP 430 440 450 460 470 480 TGMNQNMSFH RNHTATVRSH AENPTASHVD NEYSQPPRNS HLSAYPALEG ALHRSSMQPD 490 NSSDSDYDLH GAQRL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isolation of complementary DNA clones encoding the human lymphocyte glycoprotein T1/Leu-1." Jones N.H., Clabby M.L., Dialynas D.P., Huag H.-J.S., Herzenberg L.A., Strominger J.L. Nature 323:346-349(1986) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANTS ARG-461 AND VAL-471.
[2]	"Evolutionarily conserved transcription regulatory elements within the 5'-flanking region of the human CD5 gene." Calvo J., Sole J., Simarro M., Vives J., Lozano F. Tissue Antigens 47:257-261(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANTS ARG-461 AND VAL-471. Tissue: Lymphocyte.
[3]	Livingston R.J., Shaffer T., McFarland I., Nguyen C.P., Stanaway I.B., Rajkumar N., Johnson E.J., da Ponte S.H., Willa H., Ahearn M.O., Bertucci C., Acklestad J., Carroll A., Swanson J., Gildersleeve H.I., Nickerson D.A. Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANTS ARG-461 AND VAL-471.
[4]	"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], VARIANTS LEU-224 AND ARG-461. Tissue: Thymus.
[5]	"Human chromosome 11 DNA sequence and analysis including novel gene identification." Taylor T.D., Noguchi H., Totoki Y., Toyoda A., Kuroki Y., Dewar K., Lloyd C., Itoh T., Takeda T., Kim D.-W., She X., Barlow K.F., Bloom T., Bruford E., Chang J.L., Cuomo C.A., Eichler E., FitzGerald M.G. , Jaffe D.B., LaButti K., Nicol R., Park H.-S., Seaman C., Sougnez C., Yang X., Zimmer A.R., Zody M.C., Birren B.W., Nusbaum C., Fujiyama A., Hattori M., Rogers J., Lander E.S., Sakaki Y. Nature 440:497-500(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	"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], VARIANTS ARG-461 AND VAL-471. Tissue: Pancreas.
[7]	"The B-cell surface protein CD72/Lyb-2 is the ligand for CD5." van de Velde H., von Hoegen I., Luo W., Parnes J.R., Thielemans K. Nature 351:662-665(1991) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH CD72/LYB-2.
[8]	"Profiling of tyrosine phosphorylation pathways in human cells using mass spectrometry." Salomon A.R., Ficarro S.B., Brill L.M., Brinker A., Phung Q.T., Ericson C., Sauer K., Brock A., Horn D.M., Schultz P.G., Peters E.C. Proc. Natl. Acad. Sci. U.S.A. 100:443-448(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-439 AND SER-460, VARIANT [LARGE SCALE ANALYSIS] ARG-461, MASS SPECTROMETRY.
[9]	"Robust phosphoproteomic profiling of tyrosine phosphorylation sites from human T cells using immobilized metal affinity chromatography and tandem mass spectrometry." Brill L.M., Salomon A.R., Ficarro S.B., Mukherji M., Stettler-Gill M., Peters E.C. Anal. Chem. 76:2763-2772(2004) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-439, MASS SPECTROMETRY. Tissue: Leukemic T-cell.
[10]	"Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-453; SER-483 AND SER-485, MASS SPECTROMETRY. Tissue: Leukemic T-cell.
[11]	"Crystal structure of the third extracellular domain of CD5 reveals the fold of a group B scavenger cysteine-rich receptor domain." Rodamilans B., Munoz I.G., Bragado-Nilsson E., Sarrias M.R., Padilla O., Blanco F.J., Lozano F., Montoya G. J. Biol. Chem. 282:12669-12677(2007) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.21 ANGSTROMS) OF 270-369.
[12]	"Three-dimensional solution structure and conformational plasticity of the N-terminal scavenger receptor cysteine-rich domain of human CD5." Garza-Garcia A., Esposito D., Rieping W., Harris R., Briggs C., Brown M.H., Driscoll P.C. J. Mol. Biol. 378:129-144(2008) [PubMed] [Europe PMC] [Abstract] Cited for: STRUCTURE BY NMR OF 25-134, DISULFIDE BONDS.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X04391 mRNA. Translation: CAA27979.1.
X89405 , AJ237927, AJ237928, AJ237929, AJ237930, AJ237931, AJ237932 Genomic DNA. Translation: CAA61584.2.
EF064752 Genomic DNA. Translation: ABK41935.1.
AK292698 mRNA. Translation: BAF85387.1.
AP000437 Genomic DNA. No translation available.
BC027901 mRNA. Translation: AAH27901.1.

IPI

IPI00025383.

PIR

A26396.

RefSeq

NP_055022.2. NM_014207.3.

UniGene

Hs.58685.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2JA4	X-ray	2.21	A	270-369	[»]
2JOP	NMR	-	A	25-134	[»]
2JP0	NMR	-	A	25-134	[»]
2OTT	X-ray	2.50	X/Y	276-369	[»]

ProteinModelPortal

P06127.

SMR

P06127. Positions 25-134, 269-369.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-21N.

IntAct

P06127. 1 interaction.

MINT

MINT-4656212.

STRING

9606.ENSP00000342681.

PTM databases

GlycoSuiteDB

P06127.

PhosphoSite

P06127.

Polymorphism databases

DMDM

116024.

Proteomic databases

PaxDb

P06127.

PRIDE

P06127.

Protocols and materials databases

DNASU

921.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000347785; ENSP00000342681; ENSG00000110448.

GeneID

921.

KEGG

hsa:921.

UCSC

uc009ynk.3. human.

Organism-specific databases

CTD

921.

GeneCards

GC11P060869.

H-InvDB

HIX0009680.

HGNC

HGNC:1685. CD5.

HPA

CAB015392.
CAB020308.

MIM

153340. gene.

neXtProt

NX_P06127.

PharmGKB

PA26224.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG86650.

HOGENOM

HOG000111490.

HOVERGEN

HBG005286.

InParanoid

P06127.

KO

K06455.

OMA

YSQPPRN.

OrthoDB

EOG4GB76J.

PhylomeDB

P06127.

Gene expression databases

ArrayExpress

P06127.

Bgee

P06127.

CleanEx

HS_CD5.

Genevestigator

P06127.

GermOnline

ENSG00000110448. Homo sapiens.

Family and domain databases

InterPro

IPR001190. Srcr_rcpt.
IPR017448. Srcr_rcpt-rel.
IPR003566. Tcell_CD5.
[Graphical view]

PANTHER

PTHR19331:SF6. PTHR19331:SF6. 1 hit.

Pfam

PF00530. SRCR. 2 hits.
[Graphical view]

PRINTS

PR00258. SPERACTRCPTR.
PR01409. TCELLCD5.

SMART

SM00202. SR. 2 hits.
[Graphical view]

SUPFAM

SSF56487. Srcr_receptor. 2 hits.

PROSITE

PS00420. SRCR_1. False negative.
PS50287. SRCR_2. 3 hits.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P06127.

GenomeRNAi

921.

NextBio

3810.

SOURCE

Search...

Entry information

Entry name

CD5_HUMAN

Accession

Primary (citable) accession number: P06127
Secondary accession number(s): A0N0P4, A8K9I3

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1988
Last sequence update:	November 30, 2010
Last modified:	May 29, 2013
This is version 136 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.