Q8N6C8 (LIRA3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Leukocyte immunoglobulin-like receptor subfamily A member 3

Alternative name(s):
CD85 antigen-like family member E
Immunoglobulin-like transcript 6
Short name=ILT-6
Leukocyte immunoglobulin-like receptor 4
Short name=LIR-4
Monocyte inhibitory receptor HM43/HM31
CD_antigen=CD85e

Gene names

Name:	LILRA3
Synonyms:	ILT6, LIR4

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	439 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	Acts as soluble receptor for class I MHC antigens. Binds both classical and non-classical HLA class I molecules but with reduced affinities compared to LILRB1 or LILRB2. Ref.8
Subcellular location	Secreted Probable.
Tissue specificity	Detected in B-cells, and at lower levels in natural killer (NK) cells. Detected in peripheral blood monocytes and lung. Ref.1 Ref.2
Sequence similarities	Contains 4 Ig-like C2-type (immunoglobulin-like) domains.

Ontologies

Keywords
Biological process	Adaptive immunity Immunity
Cellular component	Secreted
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Immunoglobulin domain Repeat Signal
Molecular function	Receptor
PTM	Disulfide bond Glycoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	defense response Traceable author statement PubMed 9151699. Source: ProtInc signal transduction Traceable author statement PubMed 9151699. Source: ProtInc
Cellular_component	extracellular region Inferred from electronic annotation. Source: UniProtKB-SubCell plasma membrane Traceable author statement PubMed 9151699. Source: ProtInc
Molecular_function	antigen binding Traceable author statement PubMed 9151699. Source: ProtInc receptor activity Traceable author statement PubMed 9151699. Source: ProtInc
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8N6C8-1)

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: Q8N6C8-2)

The sequence of this isoform differs from the canonical sequence as follows:
     158-221: Missing.

Isoform 3 (identifier: Q8N6C8-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MHRGLIHPQSSAVGGDAM

Note: No experimental confirmation available.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 23

23

Ref.7

Chain

24 – 439

416

Leukocyte immunoglobulin-like receptor subfamily A member 3

PRO_0000014818

Regions

Domain

27 – 108

82

Ig-like C2-type 1

Domain

119 – 224

106

Ig-like C2-type 2

Domain

226 – 315

90

Ig-like C2-type 3

Domain

326 – 415

90

Ig-like C2-type 4

Amino acid modifications

Glycosylation

140

1

N-linked (GlcNAc...) Potential

Glycosylation

281

1

N-linked (GlcNAc...) Potential

Glycosylation

302

1

N-linked (GlcNAc...) Potential

Glycosylation

341

1

N-linked (GlcNAc...) Potential

Glycosylation

431

1

N-linked (GlcNAc...) Potential

Disulfide bond

49 ↔ 98

Ref.8

Disulfide bond

145 ↔ 197

By similarity

Disulfide bond

157 ↔ 167

By similarity

Disulfide bond

246 ↔ 297

Potential

Disulfide bond

346 ↔ 397

Potential

Natural variations

Alternative sequence

1

1

M → MHRGLIHPQSSAVGGDAM in isoform 3.

VSP_045886

Alternative sequence

158 – 221

64

Missing in isoform 2.

VSP_045887

Natural variant

3

1

P → S. Ref.1 Ref.2 Ref.5
Corresponds to variant rs11574606 [ dbSNP | Ensembl ].

VAR_016990

Natural variant

107

1

L → R. Ref.6
Corresponds to variant rs6509862 [ dbSNP | Ensembl ].

VAR_016991

Natural variant

301

1

Y → H. Ref.6
Corresponds to variant rs4473306 [ dbSNP | Ensembl ].

VAR_016992

Natural variant

307

1

W → C.
Corresponds to variant rs1128645 [ dbSNP | Ensembl ].

VAR_059397

Experimental info

Sequence conflict

105

1

A → V in AAH28208. Ref.5

Sequence conflict

223

1

S → P in AAB68667. Ref.1

Sequence conflict

250

1

A → T in AAM18037. Ref.6

Sequence conflict

371

1

S → L in AAB68667. Ref.1

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

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.

.

.

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.

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.

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.

.

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439

Helix Strand Turn

Details...

Beta strand

30 – 35

6

Beta strand

37 – 40

4

Beta strand

45 – 50

6

Beta strand

52 – 56

5

Beta strand

58 – 65

8

Helix

68 – 72

5

Helix

75 – 79

5

Beta strand

82 – 87

6

Helix

90 – 92

3

Beta strand

94 – 102

9

Turn

103 – 105

3

Beta strand

106 – 108

3

Beta strand

114 – 119

6

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified April 4, 2006. Version 3. Checksum: 3932C6DA202ED5F5	FASTA	439	47,472
	10 20 30 40 50 60 MTPILTVLIC LGLSLDPRTH VQAGPLPKPT LWAEPGSVIT QGSPVTLRCQ GSLETQEYHL 70 80 90 100 110 120 YREKKTALWI TRIPQELVKK GQFPILSITW EHAGRYCCIY GSHTAGLSES SDPLELVVTG 130 140 150 160 170 180 AYSKPTLSAL PSPVVTSGGN VTIQCDSQVA FDGFILCKEG EDEHPQCLNS HSHARGSSRA 190 200 210 220 230 240 IFSVGPVSPS RRWSYRCYGY DSRAPYVWSL PSDLLGLLVP GVSKKPSLSV QPGPVVAPGE 250 260 270 280 290 300 KLTFQCGSDA GYDRFVLYKE WGRDFLQRPG RQPQAGLSQA NFTLGPVSRS YGGQYTCSGA 310 320 330 340 350 360 YNLSSEWSAP SDPLDILITG QIRARPFLSV RPGPTVASGE NVTLLCQSQG GMHTFLLTKE 370 380 390 400 410 420 GAADSPLRLK SKRQSHKYQA EFPMSPVTSA HAGTYRCYGS LSSNPYLLTH PSDPLELVVS 430 GAAETLSPPQ NKSDSKAGE
	Isoform 2 [UniParc]. Checksum: C827A5E1F4C0CC41	FASTA	375	40,357
	10 20 30 40 50 60 MTPILTVLIC LGLSLDPRTH VQAGPLPKPT LWAEPGSVIT QGSPVTLRCQ GSLETQEYHL 70 80 90 100 110 120 YREKKTALWI TRIPQELVKK GQFPILSITW EHAGRYCCIY GSHTAGLSES SDPLELVVTG 130 140 150 160 170 180 AYSKPTLSAL PSPVVTSGGN VTIQCDSQVA FDGFILCVSK KPSLSVQPGP VVAPGEKLTF 190 200 210 220 230 240 QCGSDAGYDR FVLYKEWGRD FLQRPGRQPQ AGLSQANFTL GPVSRSYGGQ YTCSGAYNLS 250 260 270 280 290 300 SEWSAPSDPL DILITGQIRA RPFLSVRPGP TVASGENVTL LCQSQGGMHT FLLTKEGAAD 310 320 330 340 350 360 SPLRLKSKRQ SHKYQAEFPM SPVTSAHAGT YRCYGSLSSN PYLLTHPSDP LELVVSGAAE 370 TLSPPQNKSD SKAGE
	Isoform 3 [UniParc]. Checksum: 4CD52DE6205ED869	FASTA	456	49,187
	10 20 30 40 50 60 MHRGLIHPQS SAVGGDAMTP ILTVLICLGL SLDPRTHVQA GPLPKPTLWA EPGSVITQGS 70 80 90 100 110 120 PVTLRCQGSL ETQEYHLYRE KKTALWITRI PQELVKKGQF PILSITWEHA GRYCCIYGSH 130 140 150 160 170 180 TAGLSESSDP LELVVTGAYS KPTLSALPSP VVTSGGNVTI QCDSQVAFDG FILCKEGEDE 190 200 210 220 230 240 HPQCLNSHSH ARGSSRAIFS VGPVSPSRRW SYRCYGYDSR APYVWSLPSD LLGLLVPGVS 250 260 270 280 290 300 KKPSLSVQPG PVVAPGEKLT FQCGSDAGYD RFVLYKEWGR DFLQRPGRQP QAGLSQANFT 310 320 330 340 350 360 LGPVSRSYGG QYTCSGAYNL SSEWSAPSDP LDILITGQIR ARPFLSVRPG PTVASGENVT 370 380 390 400 410 420 LLCQSQGGMH TFLLTKEGAA DSPLRLKSKR QSHKYQAEFP MSPVTSAHAG TYRCYGSLSS 430 440 450 NPYLLTHPSD PLELVVSGAA ETLSPPQNKS DSKAGE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular identification of a novel family of human Ig superfamily members that possess immunoreceptor tyrosine-based inhibition motifs and homology to the mouse gp49B1 inhibitory receptor." Arm J.P., Nwankwo C., Austen K.F. J. Immunol. 159:2342-2349(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT SER-3, TISSUE SPECIFICITY. Tissue: Lung and Monocyte.
[2]	"A family of human lymphoid and myeloid Ig-like receptors, some of which bind to MHC class I molecules." Borges L., Hsu M.-L., Fanger N., Kubin M., Cosman D. J. Immunol. 159:5192-5196(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT SER-3, TISSUE SPECIFICITY.
[3]	"Cloning of novel immunoglobulin superfamily receptors expressed on human myeloid and lymphoid cells: structural evidence for new stimulatory and inhibitory pathways." Samaridis J., Colonna M. Eur. J. Immunol. 27:660-665(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
[4]	"The DNA sequence and biology of human chromosome 19." Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V. , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M. Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"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], VARIANT SER-3. Tissue: Peripheral blood leukocyte.
[6]	"DNA sequence variation and molecular genotyping of natural killer leukocyte immunoglobulin-like receptor, LILRA3." Norman P.J., Carey B.S., Stephens H.A., Vaughan R.W. Immunogenetics 55:165-171(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-420, VARIANTS ARG-107 AND HIS-301.
[7]	"Signal peptide prediction based on analysis of experimentally verified cleavage sites." Zhang Z., Henzel W.J. Protein Sci. 13:2819-2824(2004) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 24-38.
[8]	"LILRA3 binds both classical and non-classical HLA class I molecules but with reduced affinities compared to LILRB1/LILRB2: structural evidence." Ryu M., Chen Y., Qi J., Liu J., Fan Z., Nam G., Shi Y., Cheng H., Gao G.F. PLoS ONE 6:E19245-E19245(2011) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 24-120, DISULFIDE BOND, FUNCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U91926 mRNA. Translation: AAB68666.1.
U91927 mRNA. Translation: AAB68667.1.
AF025527 mRNA. Translation: AAB87661.1.
AF014924 mRNA. Translation: AAC51886.1.
AC008984 Genomic DNA. No translation available.
AC010518 Genomic DNA. No translation available.
BC028208 mRNA. Translation: AAH28208.1.
AF482762 Genomic DNA. Translation: AAM18035.1.
AF482763 Genomic DNA. Translation: AAM18036.1.
AF482764 Genomic DNA. Translation: AAM18037.1.
AF482765 Genomic DNA. Translation: AAM18038.1.
AF482766 Genomic DNA. Translation: AAM18039.1.
AF482767 Genomic DNA. Translation: AAM18040.1.
AF482768 Genomic DNA. Translation: AAM18041.1.
AF482769 Genomic DNA. Translation: AAM18042.1.

IPI

IPI00329104.

RefSeq

NP_001166125.1. NM_001172654.1.
NP_006856.3. NM_006865.3.

UniGene

Hs.113277.
Hs.624711.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3Q2C	X-ray	2.50	A	24-120	[»]

ProteinModelPortal

Q8N6C8.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q8N6C8. 1 interaction.

MINT

MINT-1482453.

PTM databases

PhosphoSite

Q8N6C8.

Polymorphism databases

DMDM

92090611.

Proteomic databases

PaxDb

Q8N6C8.

PRIDE

Q8N6C8.

Protocols and materials databases

DNASU

11026.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000251390; ENSP00000251390; ENSG00000170866.
ENST00000391744; ENSP00000375624; ENSG00000170866.
ENST00000391745; ENSP00000375625; ENSG00000170866.
ENST00000570542; ENSP00000460710; ENSG00000261937.
ENST00000571164; ENSP00000458358; ENSG00000262383.
ENST00000571761; ENSP00000458601; ENSG00000261937.
ENST00000574010; ENSP00000461794; ENSG00000261937.
ENST00000574138; ENSP00000459648; ENSG00000261935.
ENST00000575459; ENSP00000461834; ENSG00000261935.
ENST00000575965; ENSP00000460183; ENSG00000262383.
ENST00000576482; ENSP00000461213; ENSG00000261935.
ENST00000577107; ENSP00000459219; ENSG00000262383.

GeneID

11026.

KEGG

hsa:11026.

UCSC

uc002qfd.3. human.

Organism-specific databases

CTD

11026.

GeneCards

GC19M054798.

HGNC

HGNC:6604. LILRA3.

MIM

604818. gene.

neXtProt

NX_Q8N6C8.

PharmGKB

PA30378.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG25855.

HOVERGEN

HBG074353.

InParanoid

Q8N6C8.

KO

K06512.

OrthoDB

EOG4DFPND.

PhylomeDB

Q8N6C8.

Gene expression databases

Bgee

Q8N6C8.

Genevestigator

Q8N6C8.

GermOnline

ENSG00000170866. Homo sapiens.

Family and domain databases

Gene3D

2.60.40.10. 4 hits.

InterPro

IPR016332. A1B_glyco/leuk_Ig-like_rcpt.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
[Graphical view]

PIRSF

PIRSF001979. Alpha_1B_glycoprot_prd. 1 hit.

SMART

SM00409. IG. 3 hits.
[Graphical view]

PROSITE

PS50835. IG_LIKE. 3 hits.
[Graphical view]

ProtoNet

Search...

Other

GenomeRNAi

11026.

NextBio

35535164.

SOURCE

Search...

Entry information

Entry name

LIRA3_HUMAN

Accession

Primary (citable) accession number: Q8N6C8
Secondary accession number(s): J3KPM2 , O15469, O15470, O75016, Q8N151, Q8N154, Q8NHJ1, Q8NHJ2, Q8NHJ3, Q8NHJ4

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 3, 2003
Last sequence update:	April 4, 2006
Last modified:	May 1, 2013
This is version 97 of the entry and version 3 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.