rnf168 ring finger protein 168, E3 ubiquitin protein ligase [Xenopus tropicalis (tropical clawed frog)] - Gene

Summary

Official Symbol: rnf168provided by Xenbase
Official Full Name: ring finger protein 168, E3 ubiquitin protein ligaseprovided by Xenbase
Primary source: Xenbase:XB-GENE-5765249
See related: Ensembl:ENSXETG00000003128
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus tropicalis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
104	current	UCB_Xtro_10.0 (GCF_000004195.4)	5	NC_030681.2 (129621159..129633177)
103	previous assembly	Xenopus_tropicalis_v9.1 (GCF_000004195.3)	5	NC_030681.1 (125984824..125996730)

Chromosome 5 - NC_030681.2 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables K63-linked polyubiquitin modification-dependent protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone binding	IEA Inferred from Electronic Annotation more info
enables histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleosome binding	IBA Inferred from Biological aspect of Ancestor more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	ISS Inferred from Sequence or Structural Similarity more info
enables ubiquitin-protein transferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin-protein transferase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair-dependent chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within double-strand break repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within double-strand break repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within isotype switching	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of transcription elongation by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of DNA repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein K63-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within response to ionizing radiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to ionizing radiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
is_active_in site of double-strand break	IBA Inferred from Biological aspect of Ancestor more info
located_in site of double-strand break	ISS Inferred from Sequence or Structural Similarity more info
part_of ubiquitin ligase complex	IEA Inferred from Electronic Annotation more info
part_of ubiquitin ligase complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase rnf168

Names: E3 ubiquitin-protein ligase RNF168; RING-type E3 ubiquitin transferase rnf168

NP_001119969.1

EC 2.3.2.27

XP_012825502.1

EC 2.3.2.27

XP_012825503.1

EC 2.3.2.27

XP_017949269.1

EC 2.3.2.27

XP_031757360.1

EC 2.3.2.27

NCBI Reference Sequences (RefSeq)

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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_001126497.1 → NP_001119969.1 E3 ubiquitin-protein ligase rnf168

See identical proteins and their annotated locations for NP_001119969.1

Status: PROVISIONAL

Source sequence(s)

BC158160

UniProtKB/Swiss-Prot

B0BLU1

UniProtKB/TrEMBL

A0A803JM75

Related

ENSXETP00000109041.1, ENSXETT00000110118.1

Conserved Domains (3) summary

cd22265
Location:112 → 185

UDM1_RNF168; UDM1 (ubiquitin-dependent DSB recruitment module 1) domain found in RING finger protein 168

cd21952
Location:398 → 447

MIU2_RNF168; second motif interacting with ubiquitin domain found in RING finger protein 168

cd16550
Location:14 → 61

RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins

RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

NC_030681.2 Reference UCB_Xtro_10.0 Primary Assembly

Range

129621159..129633177

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_031901500.1 → XP_031757360.1 E3 ubiquitin-protein ligase rnf168 isoform X3

UniProtKB/TrEMBL

A0A803JM75, A0A8J0SWR7

Conserved Domains (3) summary

cd16550
Location:16 → 57

RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins

cd22265
Location:112 → 185

UDM1_RNF168; UDM1 (ubiquitin-dependent DSB recruitment module 1) domain found in RING finger protein 168

cd21952
Location:400 → 449

MIU2_RNF168; second motif interacting with ubiquitin domain found in RING finger protein 168
XM_012970048.3 → XP_012825502.1 E3 ubiquitin-protein ligase rnf168 isoform X1

UniProtKB/TrEMBL

A0A803JM75, F7BPQ0

Related

ENSXETP00000006779.4, ENSXETT00000006779.5

Conserved Domains (1) summary

cd16550
Location:24 → 65

RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins
XM_012970049.3 → XP_012825503.1 E3 ubiquitin-protein ligase rnf168 isoform X3

UniProtKB/TrEMBL

A0A803JM75, A0A8J0SWR7

Conserved Domains (3) summary

cd16550
Location:16 → 57

RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins

cd22265
Location:112 → 185

UDM1_RNF168; UDM1 (ubiquitin-dependent DSB recruitment module 1) domain found in RING finger protein 168

cd21952
Location:400 → 449

MIU2_RNF168; second motif interacting with ubiquitin domain found in RING finger protein 168
XM_018093780.2 → XP_017949269.1 E3 ubiquitin-protein ligase rnf168 isoform X2

UniProtKB/TrEMBL

A0A803JM75, A0A8J0T2R1