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Protein

E3 ubiquitin-protein ligase RNF38

Gene

RNF38

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Acts as an E3 ubiquitin-protein ligase able to ubiquitinate p53/TP53 which promotes its relocalization to discrete foci associated with PML nuclear bodies. Exhibits preference for UBE2D2 as a E2 enzyme.1 Publication

Catalytic activityi

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N6-ubiquitinyl-[acceptor protein]-L-lysine.

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri463 – 504RING-typePROSITE-ProRule annotationAdd BLAST42

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionTransferase
Biological processUbl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

UniPathwayi
UPA00143

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase RNF38 (EC:2.3.2.27)
Alternative name(s):
RING finger protein 38
RING-type E3 ubiquitin transferase RNF38Curated
Gene namesi
Name:RNF38
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

EuPathDBiHostDB:ENSG00000137075.17
HGNCiHGNC:18052 RNF38
MIMi612488 gene
neXtProtiNX_Q9H0F5

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000137075
PharmGKBiPA34438

Polymorphism and mutation databases

BioMutaiRNF38
DMDMi56749664

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000560781 – 515E3 ubiquitin-protein ligase RNF38Add BLAST515

Proteomic databases

PaxDbiQ9H0F5
PeptideAtlasiQ9H0F5
PRIDEiQ9H0F5
ProteomicsDBi80269
80270 [Q9H0F5-2]
80271 [Q9H0F5-3]

PTM databases

iPTMnetiQ9H0F5
PhosphoSitePlusiQ9H0F5

Expressioni

Tissue specificityi

Widely expressed with highest levels in testis.1 Publication

Gene expression databases

BgeeiENSG00000137075 Expressed in 223 organ(s), highest expression level in sperm
CleanExiHS_RNF38
GenevisibleiQ9H0F5 HS

Organism-specific databases

HPAiHPA015853

Interactioni

Protein-protein interaction databases

BioGridi127416, 17 interactors
IntActiQ9H0F5, 20 interactors
STRINGi9606.ENSP00000259605

Structurei

Secondary structure

1515
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ9H0F5
SMRiQ9H0F5
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9H0F5

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi57 – 71Bipartite nuclear localization signal 1Add BLAST15
Motifi115 – 131Bipartite nuclear localization signal 2Add BLAST17

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi239 – 404Pro-richAdd BLAST166

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri463 – 504RING-typePROSITE-ProRule annotationAdd BLAST42

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG0800 Eukaryota
ENOG41121N2 LUCA
GeneTreeiENSGT00730000110459
HOGENOMiHOG000231638
HOVERGENiHBG059283
InParanoidiQ9H0F5
KOiK19041
OMAiNQHHFSG
OrthoDBiEOG091G09VT
PhylomeDBiQ9H0F5
TreeFamiTF325756

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF13639 zf-RING_2, 1 hit
SMARTiView protein in SMART
SM00184 RING, 1 hit
PROSITEiView protein in PROSITE
PS50089 ZF_RING_2, 1 hit

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q9H0F5-1) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MACKISPGAN SASLPGHPNK VICERVRLQS LFPLLPSDQN TTVQEDAHFK
60 70 80 90 100
AFFQSEDSPS PKRQRLSHSV FDYTSASPAP SPPMRPWEMT SNRQPPSVRP
110 120 130 140 150
SQHHFSGERC NTPARNRRSP PVRRQRGRRD RLSRHNSISQ DENYHHLPYA
160 170 180 190 200
QQQAIEEPRA FHPPNVSPRL LHPAAHPPQQ NAVMVDIHDQ LHQGTVPVSY
210 220 230 240 250
TVTTVAPHGI PLCTGQHIPA CSTQQVPGCS VVFSGQHLPV CSVPPPMLQA
260 270 280 290 300
CSVQHLPVPY AAFPPLISSD PFLIHPPHLS PHHPPHLPPP GQFVPFQTQQ
310 320 330 340 350
SRSPLQRIEN EVELLGEHLP VGGFTYPPSA HPPTLPPSAP LQFLTHDPLH
360 370 380 390 400
QEVSFGVPYP PFMPRRLTGR SRYRSQQPIP PPPYHPSLLP YVLSMLPVPP
410 420 430 440 450
AVGPTFSFEL DVEDGEVENY EALLNLAERL GEAKPRGLTK ADIEQLPSYR
460 470 480 490 500
FNPNNHQSEQ TLCVVCMCDF ESRQLLRVLP CNHEFHAKCV DKWLKANRTC
510
PICRADASEV HRDSE
Length:515
Mass (Da):57,595
Last modified:December 21, 2004 - v4
Checksum:iABFE9486CA732AFA
GO
Isoform 2 (identifier: Q9H0F5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     5-54: Missing.

Note: No experimental confirmation available.
Show »
Length:465
Mass (Da):52,106
Checksum:i18A919182C967BA6
GO
Isoform 3 (identifier: Q9H0F5-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-83: Missing.

Show »
Length:432
Mass (Da):48,562
Checksum:iCCC2D1396DB31D2C
GO
Isoform 4 (identifier: Q9H0F5-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-44: MACKISPGAN...LPSDQNTTVQ → MQHTCTQQKK...NLAGFQLQSP
     45-120: Missing.

Note: No experimental confirmation available.
Show »
Length:439
Mass (Da):49,265
Checksum:i76E2EFFA9FDFA02D
GO
Isoform 5 (identifier: Q9H0F5-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-183: Missing.

Note: No experimental confirmation available.
Show »
Length:332
Mass (Da):36,836
Checksum:i4A2E365DA4A094A0
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti308I → K in CAB66751 (PubMed:11230166).Curated1
Sequence conflicti421E → G in BAG52726 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_055400206A → T1 PublicationCorresponds to variant dbSNP:rs183475137Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0538451 – 183Missing in isoform 5. 1 PublicationAdd BLAST183
Alternative sequenceiVSP_0373371 – 83Missing in isoform 3. 1 PublicationAdd BLAST83
Alternative sequenceiVSP_0538461 – 44MACKI…NTTVQ → MQHTCTQQKKVTYKHIARFS PRNRLCQADAVFNNNLAGFQ LQSP in isoform 4. 1 PublicationAdd BLAST44
Alternative sequenceiVSP_0122435 – 54Missing in isoform 2. 1 PublicationAdd BLAST50
Alternative sequenceiVSP_05384745 – 120Missing in isoform 4. 1 PublicationAdd BLAST76

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF394047 mRNA Translation: AAM73697.1
AL136817 mRNA Translation: CAB66751.3
AK024996 mRNA Translation: BAB15050.1
AK093480 mRNA Translation: BAG52726.1
AL161792 Genomic DNA No translation available.
AL354935 Genomic DNA No translation available.
CH471071 Genomic DNA Translation: EAW58305.1
BC033786 mRNA Translation: AAH33786.2
CCDSiCCDS6603.1 [Q9H0F5-1]
CCDS6604.1 [Q9H0F5-2]
RefSeqiNP_073618.3, NM_022781.4 [Q9H0F5-1]
NP_919309.1, NM_194328.2 [Q9H0F5-3]
NP_919310.1, NM_194329.2 [Q9H0F5-2]
NP_919311.1, NM_194330.2 [Q9H0F5-3]
NP_919313.1, NM_194332.2 [Q9H0F5-3]
XP_005251423.1, XM_005251366.3 [Q9H0F5-3]
XP_005251424.1, XM_005251367.3 [Q9H0F5-3]
XP_005251425.1, XM_005251368.3
XP_006716784.1, XM_006716721.3 [Q9H0F5-3]
XP_011516014.1, XM_011517712.2 [Q9H0F5-3]
XP_011516015.1, XM_011517713.2 [Q9H0F5-3]
XP_016869784.1, XM_017014295.1
UniGeneiHs.333503

Genome annotation databases

EnsembliENST00000259605; ENSP00000259605; ENSG00000137075 [Q9H0F5-1]
ENST00000350199; ENSP00000343947; ENSG00000137075 [Q9H0F5-3]
ENST00000353739; ENSP00000335239; ENSG00000137075 [Q9H0F5-2]
ENST00000357058; ENSP00000349566; ENSG00000137075 [Q9H0F5-3]
ENST00000377877; ENSP00000367109; ENSG00000137075 [Q9H0F5-4]
ENST00000377885; ENSP00000367117; ENSG00000137075 [Q9H0F5-3]
ENST00000611646; ENSP00000483536; ENSG00000137075 [Q9H0F5-4]
GeneIDi152006
KEGGihsa:152006
UCSCiuc003zzh.5 human [Q9H0F5-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF394047 mRNA Translation: AAM73697.1
AL136817 mRNA Translation: CAB66751.3
AK024996 mRNA Translation: BAB15050.1
AK093480 mRNA Translation: BAG52726.1
AL161792 Genomic DNA No translation available.
AL354935 Genomic DNA No translation available.
CH471071 Genomic DNA Translation: EAW58305.1
BC033786 mRNA Translation: AAH33786.2
CCDSiCCDS6603.1 [Q9H0F5-1]
CCDS6604.1 [Q9H0F5-2]
RefSeqiNP_073618.3, NM_022781.4 [Q9H0F5-1]
NP_919309.1, NM_194328.2 [Q9H0F5-3]
NP_919310.1, NM_194329.2 [Q9H0F5-2]
NP_919311.1, NM_194330.2 [Q9H0F5-3]
NP_919313.1, NM_194332.2 [Q9H0F5-3]
XP_005251423.1, XM_005251366.3 [Q9H0F5-3]
XP_005251424.1, XM_005251367.3 [Q9H0F5-3]
XP_005251425.1, XM_005251368.3
XP_006716784.1, XM_006716721.3 [Q9H0F5-3]
XP_011516014.1, XM_011517712.2 [Q9H0F5-3]
XP_011516015.1, XM_011517713.2 [Q9H0F5-3]
XP_016869784.1, XM_017014295.1
UniGeneiHs.333503

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1X4JNMR-A445-506[»]
4V3KX-ray2.04C/F439-515[»]
4V3LX-ray1.53C439-515[»]
ProteinModelPortaliQ9H0F5
SMRiQ9H0F5
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi127416, 17 interactors
IntActiQ9H0F5, 20 interactors
STRINGi9606.ENSP00000259605

PTM databases

iPTMnetiQ9H0F5
PhosphoSitePlusiQ9H0F5

Polymorphism and mutation databases

BioMutaiRNF38
DMDMi56749664

Proteomic databases

PaxDbiQ9H0F5
PeptideAtlasiQ9H0F5
PRIDEiQ9H0F5
ProteomicsDBi80269
80270 [Q9H0F5-2]
80271 [Q9H0F5-3]

Protocols and materials databases

DNASUi152006
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000259605; ENSP00000259605; ENSG00000137075 [Q9H0F5-1]
ENST00000350199; ENSP00000343947; ENSG00000137075 [Q9H0F5-3]
ENST00000353739; ENSP00000335239; ENSG00000137075 [Q9H0F5-2]
ENST00000357058; ENSP00000349566; ENSG00000137075 [Q9H0F5-3]
ENST00000377877; ENSP00000367109; ENSG00000137075 [Q9H0F5-4]
ENST00000377885; ENSP00000367117; ENSG00000137075 [Q9H0F5-3]
ENST00000611646; ENSP00000483536; ENSG00000137075 [Q9H0F5-4]
GeneIDi152006
KEGGihsa:152006
UCSCiuc003zzh.5 human [Q9H0F5-1]

Organism-specific databases

CTDi152006
EuPathDBiHostDB:ENSG00000137075.17
GeneCardsiRNF38
HGNCiHGNC:18052 RNF38
HPAiHPA015853
MIMi612488 gene
neXtProtiNX_Q9H0F5
OpenTargetsiENSG00000137075
PharmGKBiPA34438
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0800 Eukaryota
ENOG41121N2 LUCA
GeneTreeiENSGT00730000110459
HOGENOMiHOG000231638
HOVERGENiHBG059283
InParanoidiQ9H0F5
KOiK19041
OMAiNQHHFSG
OrthoDBiEOG091G09VT
PhylomeDBiQ9H0F5
TreeFamiTF325756

Enzyme and pathway databases

UniPathwayi
UPA00143

Miscellaneous databases

ChiTaRSiRNF38 human
EvolutionaryTraceiQ9H0F5
GeneWikiiRNF38
GenomeRNAii152006
PROiPR:Q9H0F5
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000137075 Expressed in 223 organ(s), highest expression level in sperm
CleanExiHS_RNF38
GenevisibleiQ9H0F5 HS

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF13639 zf-RING_2, 1 hit
SMARTiView protein in SMART
SM00184 RING, 1 hit
PROSITEiView protein in PROSITE
PS50089 ZF_RING_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRNF38_HUMAN
AccessioniPrimary (citable) accession number: Q9H0F5
Secondary accession number(s): A6PVP9
, B1AM81, B1AM82, B3KSG4, E7EVL3, Q7LB33, Q8N0Y0, Q9H748
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 21, 2004
Last sequence update: December 21, 2004
Last modified: October 10, 2018
This is version 145 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 9
    Human chromosome 9: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  6. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
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