TRIM6 tripartite motif containing 6 [Homo sapiens] - Gene

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Summary

Official Symbol: TRIM6provided by HGNC
Official Full Name: tripartite motif containing 6provided by HGNC
Primary source: HGNC:16277
See related: Ensembl:ENSG00000121236; HPRD:12123; MIM:607564; Vega:OTTHUMG00000150029
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: RNF89
Summary: The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, B-box type 1 and B-box type 2 domain, and a coiled-coil region. The protein localizes to the nucleus, but its specific function has not been identified. This gene is mapped to chromosome 11p15, where it resides within a TRIM gene cluster. Alternative splicing results in multiple transcript variants. A read-through transcript from this gene into the downstream TRIM34 gene has also been observed, which results in a fusion product from these neighboring family members. [provided by RefSeq, Oct 2010]

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Genomic context

Location :: 11p15.4

Sequence :: Chromosome: 11; NC_000011.9 (5617331..5634188)

See TRIM6 in Epigenomics, MapViewer

Chromosome 11 - NC_000011.9 Genomic Context describing neighboring genes

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Genomic regions, transcripts, and products

Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

Go to reference sequence details

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Bibliography

GeneRIFs: Gene References Into Functions What's a GeneRIF?

heterologous RING, B-box 2, and CC domains from related TRIM proteins can functionally substitute for TRIM5alpha(rh) domains.
Title: Functional replacement of the RING, B-box 2, and coiled-coil domains of tripartite motif 5alpha (TRIM5alpha) by heterologous TRIM domains.

Submit: New GeneRIF Correction

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Phenotypes

Review eQTL and phenotype association data in this region using PheGenI

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HIV-1 protein interactions

Protein	Gene	Interaction	Pubs
capsid	gag	The RING, B-box 2, and coiled-coil domains of TRIM6 can functionally replace the corresponding domains of rhesus monkey TRIM5alpha with respect to inhibition of HIV-1 infection through the binding of the chimeras to HIV-1 capsid complexes	PubMed

Go to the HIV-1, Human Protein Interaction Database

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Products	Interactant	Other Gene	Source	Pubs	Description
Q9C030	Q9C035	TRIM5	HPRD	PubMed
Q9C030	Q9C030	TRIM6	HPRD	PubMed
BioGRID:125596	BioGRID:106868	TRIM23	BioGRID	PubMed	Co-purification
BioGRID:125596	BioGRID:115457	TRIM28	BioGRID	PubMed	Co-purification
BioGRID:125596	BioGRID:125596	TRIM6	BioGRID	PubMed	Two-hybrid

Function	Evidence Code	Pubs
metal ion binding	IEA Inferred from Electronic Annotation more info
molecular_function	ND No biological Data available more info
zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
protein trimerization	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
cytoplasm	IDA Inferred from Direct Assay more info	PubMed
intracellular	IEA Inferred from Electronic Annotation more info

General protein information

Preferred Names: tripartite motif-containing protein 6

Names: tripartite motif-containing protein 6; RING finger protein 89; tripartite motif-containing 6

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NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001003818.2 → NP_001003818.1 tripartite motif-containing protein 6 isoform 1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AF220030, AK023210, AK290172, AK316178, BC047564

Consensus CDS

CCDS31389.1

UniProtKB/TrEMBL

B4DDQ5

UniProtKB/Swiss-Prot

Q9C030

Related

ENSP00000369440, OTTHUMP00000069820, ENST00000380097, OTTHUMT00000143378

Conserved Domains (5) summary

cd00021
Location:123 – 161
Blast Score: 97

BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.

cd00162
Location:42 – 90
Blast Score: 107

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

pfam13923
Location:39 – 89
Blast Score: 103

zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

cl02614
Location:380 – 507
Blast Score: 228

SPRY; SPRY domain

cl02686
Location:328 – 378
Blast Score: 116

PRY; SPRY-associated domain
NM_001198644.1 → NP_001185573.1 tripartite motif-containing protein 6 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an alternate exon in the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.

Source sequence(s)

AF220030, AK023210, AK290172, AK293295, AK298301, AK316178, BC047564, DA401634

Consensus CDS

CCDS55738.1

UniProtKB/TrEMBL

B4DDQ5

UniProtKB/Swiss-Prot

Q9C030

Related

ENSP00000421079, OTTHUMP00000220648, ENST00000506134, OTTHUMT00000365868

Conserved Domains (2) summary

cl02614
Location:177 – 304
Blast Score: 221

SPRY; SPRY domain

cl02686
Location:125 – 175
Blast Score: 113

PRY; SPRY-associated domain
NM_001198645.1 → NP_001185574.1 tripartite motif-containing protein 6 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (4) lacks two alternate exons in the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.

Source sequence(s)

AF220030, AK023210, AK290172, AK293295, BC047564, DA401634

Consensus CDS

CCDS55738.1

UniProtKB/TrEMBL

B4DDQ5

UniProtKB/Swiss-Prot

Q9C030

Related

ENSP00000421802, OTTHUMP00000220649, ENST00000515022, OTTHUMT00000365869

Conserved Domains (2) summary

cl02614
Location:177 – 304
Blast Score: 221

SPRY; SPRY domain

cl02686
Location:125 – 175
Blast Score: 113

PRY; SPRY-associated domain
NM_058166.4 → NP_477514.1 tripartite motif-containing protein 6 isoform 2

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

AF220030, AK023210, AK027664, AK290172, DB233046, DC354457

Consensus CDS

CCDS31390.1

UniProtKB/Swiss-Prot

Q9C030

Related

ENSP00000278302, OTTHUMP00000069818, ENST00000278302, OTTHUMT00000143376

Conserved Domains (5) summary

cd00021
Location:95 – 133
Blast Score: 97

BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.

cd00162
Location:14 – 62
Blast Score: 107

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

pfam13923
Location:11 – 61
Blast Score: 102

zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

cl02614
Location:352 – 479
Blast Score: 227

SPRY; SPRY domain

cl02686
Location:300 – 350
Blast Score: 115

PRY; SPRY-associated domain

RefSeqs of Annotated Genomes: Build 37.3

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh37.p5 Primary Assembly

Genomic

NC_000011.9 Reference GRCh37.p5 Primary Assembly

Range

5617331..5634188

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate HuRef

Genomic

AC_000143.1 Alternate HuRef

Range

5275183..5292762

Download

GenBank, FASTA, Sequence Viewer (Graphics)

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Related Sequences

Nucleotide		Protein
Heading	Accession and Version	Protein
genomic	AC015691.6 (52991..69832)	None
genomic	CH471064.2	EAW68782.1
		EAW68783.1
		EAW68785.1
mRNA	AF220030.1	AAG53484.1
mRNA	AK023210.1	None
mRNA	AK027664.1	BAB55276.1
mRNA	AK290172.1	BAF82861.1
mRNA	AK293295.1	BAG56816.1
mRNA	AK298301.1	BAG60556.1
mRNA	AK316178.1	BAH14549.1
mRNA	AK316289.1	BAH14660.1
mRNA	BC047564.1	AAH47564.1
mRNA	BC065575.1	AAH65575.1
mRNA	BG776117.1	None
mRNA	CR749260.1	CAH18116.1
mRNA	DA401634.1	None
mRNA	DB233046.1	None
mRNA	DC354457.1	None

Protein Accession	Links
Protein Accession	GenPept Link	UniProtKB Link
Q68DV4	GenPept	UniProtKB/TrEMBL:Q68DV4
Q6P0L0	GenPept	UniProtKB/TrEMBL:Q6P0L0
Q9C030.1	GenPept	UniProtKB/Swiss-Prot:Q9C030