Reviewed, UniProtKB/Swiss-Prot P62840 (UB2D2_XENLA)

Names and origin

Protein names

Recommended name:
    Ubiquitin-conjugating enzyme E2 D2
    EC=6.3.2.19
Alternative name(s):
    Ubiquitin-protein ligase D2
    Ubiquitin carrier protein D2
    Xubc4

Gene names

Name:	ube2d2
Synonyms:	ubc4

Organism

Xenopus laevis (African clawed frog)

Taxonomic identifier

8355 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Amphibia › Batrachia › Anura › Mesobatrachia › Pipoidea › Pipidae › Xenopodinae › Xenopus › Xenopus

Protein attributes

Sequence length	147 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Catalyzes the covalent attachment of ubiquitin to other proteins. Mediates the selective degradation of short-lived and abnormal proteins. Functions in the E6/E6-AP-induced ubiquitination of p53/TP53 By similarity.
Catalytic activity	ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.
Pathway	Protein modification; protein ubiquitination.
Subunit structure	Interacts with SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complex By similarity.
Sequence similarities	Belongs to the ubiquitin-conjugating enzyme family.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Ligand	ATP-binding Nucleotide-binding
Molecular function	Ligase
Technical term	3D-structure
Gene Ontology (GO)
Biological process	modification-dependent protein catabolic process Inferred from electronic annotation. Source: UniProtKB-KW post-translational protein modification Inferred from electronic annotation. Source: InterPro regulation of protein metabolic process Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ubiquitin-protein ligase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 147

147

Ubiquitin-conjugating enzyme E2 D2

PRO_0000082465

Sites

Active site

85

1

Glycyl thioester intermediate By similarity

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

147

Helix Strand Turn

Details...

Helix

2 – 15

14

Beta strand

32 – 37

6

Beta strand

50 – 55

6

Turn

58 – 62

5

Beta strand

66 – 71

6

Turn

87 – 92

6

Helix

99 – 111

13

Helix

121 – 129

9

Helix

131 – 145

15

Sequences

	Sequence		Length	Mass (Da)
	P62840-1 [UniParc]. Last modified August 16, 2004. Version 1. Checksum: C942BE7853CBC355	FASTA	147	16,735
	10 20 30 40 50 60 MALKRIHKEL NDLARDPPAQ CSAGPVGDDM FHWQATIMGP NDSPYQGGVF FLTIHFPTDY 70 80 90 100 110 120 PFKPPKVAFT TRIYHPNINS NGSICLDILR SQWSPALTIS KVLLSICSLL CDPNPDDPLV 130 140 PEIARIYKTD REKYNRIARE WTQKYAM

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning of cDNAs encoding Xenopus ubiquitin-conjugating enzyme(E2) and their expression in various Xenopus tissues." Karasawa A., Matushita H., Yagura T. Submitted (MAR-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Oocyte.
[2]	NIH - Xenopus Gene Collection (XGC) project Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Eye.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AB105546 mRNA. Translation: BAD06215.1.
BC084359 mRNA. Translation: AAH84359.1.

RefSeq

NP_001084434.1.

UniGene

Xl.45490

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3EB6	X-ray	3.40	B	1-147	[»]

ModBase

Search...

Proteomic databases

PRIDE

P62840.

Genome annotation databases

GeneID

403384.

KEGG

xla:403384.

Organism-specific databases

CTD

403384.

Xenbase

XB-FEAT-972277. ube2d3.

Phylogenomic databases

HOVERGEN

P62840.

Enzyme and pathway databases

BRENDA

6.3.2.19. 648.

Family and domain databases

InterPro

IPR016135. UBQ-conjugat/RWD-like.
IPR000608. UBQ-conjugat_E2.
[Graphical view]

Gene3D

G3DSA:3.10.110.10. UBQ-conjugat_E2. 1 hit.

Pfam

PF00179. UQ_con. 1 hit.
[Graphical view]

SMART

SM00212. UBCc. 1 hit.
[Graphical view]

PROSITE

PS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

UB2D2_XENLA

Accession

Primary (citable) accession number: P62840
Secondary accession number(s): P51669, Q5XGS3

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 16, 2004
Last sequence update:	August 16, 2004
Last modified:	January 19, 2010
This is version 44 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Xenopus annotation project