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Protein

tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4

Gene

WDR4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the complex, it is required to stabilize and induce conformational changes of the catalytic subunit.UniRule annotation1 Publication

Pathwayi: N(7)-methylguanine-tRNA biosynthesis

This protein is involved in the pathway N(7)-methylguanine-tRNA biosynthesis, which is part of tRNA modification.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway N(7)-methylguanine-tRNA biosynthesis and in tRNA modification.

GO - Biological processi

  • RNA (guanine-N7)-methylation Source: InterPro
  • tRNA methylation Source: UniProtKB-HAMAP
  • tRNA modification Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciZFISH:HS08458-MONOMER.
ReactomeiR-HSA-6782315. tRNA modification in the nucleus and cytosol.
SignaLinkiP57081.
UniPathwayiUPA00989.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4UniRule annotation
Alternative name(s):
WD repeat-containing protein 4UniRule annotation
Gene namesi
Name:WDR4UniRule annotation
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 21

Organism-specific databases

HGNCiHGNC:12756. WDR4.

Subcellular locationi

  • Nucleus UniRule annotation1 Publication

GO - Cellular componenti

  • cytoplasm Source: HPA
  • cytosol Source: GO_Central
  • nucleoplasm Source: UniProtKB
  • nucleus Source: UniProtKB
  • tRNA methyltransferase complex Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000160193.
PharmGKBiPA37360.

Polymorphism and mutation databases

BioMutaiWDR4.
DMDMi20141943.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00000513482 – 412tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4Add BLAST411

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanine1 Publication1
Modified residuei391PhosphoserineCombined sources1
Modified residuei411PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP57081.
MaxQBiP57081.
PaxDbiP57081.
PeptideAtlasiP57081.
PRIDEiP57081.

PTM databases

iPTMnetiP57081.
PhosphoSitePlusiP57081.

Expressioni

Gene expression databases

BgeeiENSG00000160193.
CleanExiHS_WDR4.
GenevisibleiP57081. HS.

Organism-specific databases

HPAiHPA017381.

Interactioni

Subunit structurei

Forms a heterodimer with the catalytic subunit METTL1.

Binary interactionsi

WithEntry#Exp.IntActNotes
FAM118AQ9NWS65EBI-750427,EBI-8638992
METTL1Q9UBP64EBI-750427,EBI-750415
RABGGTBP536113EBI-750427,EBI-536715

Protein-protein interaction databases

BioGridi116001. 49 interactors.
DIPiDIP-61919N.
IntActiP57081. 5 interactors.
MINTiMINT-1440842.
STRINGi9606.ENSP00000328671.

Structurei

3D structure databases

ProteinModelPortaliP57081.
SMRiP57081.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati3 – 40WD 1Add BLAST38
Repeati50 – 90WD 2Add BLAST41
Repeati94 – 131WD 3Add BLAST38
Repeati137 – 174WD 4Add BLAST38
Repeati180 – 218WD 5Add BLAST39
Repeati230 – 273WD 6Add BLAST44
Repeati319 – 373WD 7Add BLAST55

Sequence similaritiesi

Belongs to the WD repeat TRM82 family.UniRule annotation
Contains 7 WD repeats.UniRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiKOG3914. Eukaryota.
ENOG4111WRP. LUCA.
GeneTreeiENSGT00390000012174.
HOVERGENiHBG022880.
InParanoidiP57081.
KOiK15443.
OMAiASRIAYC.
OrthoDBiEOG091G0C2L.
PhylomeDBiP57081.
TreeFamiTF105877.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
HAMAPiMF_03056. TRM82. 1 hit.
InterProiIPR028884. Trm82.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 4 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P57081-1) [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
MAGSVGLALC GQTLVVRGGS RFLATSIASS DDDSLFIYDC SAAEKKSQEN
60 70 80 90 100
KGEDAPLDQG SGAILASTFS KSGSYFALTD DSKRLILFRT KPWQCLSVRT
110 120 130 140 150
VARRCTALTF IASEEKVLVA DKSGDVYSFS VLEPHGCGRL ELGHLSMLLD
160 170 180 190 200
VAVSPDDRFI LTADRDEKIR VSWAAAPHSI ESFCLGHTEF VSRISVVPTQ
210 220 230 240 250
PGLLLSSSGD GTLRLWEYRS GRQLHCCHLA SLQELVDPQA PQKFAASRIA
260 270 280 290 300
FWCQENCVAL LCDGTPVVYI FQLDARRQQL VYRQQLAFQH QVWDVAFEET
310 320 330 340 350
QGLWVLQDCQ EAPLVLYRPV GDQWQSVPES TVLKKVSGVL RGNWAMLEGS
360 370 380 390 400
AGADASFSSL YKATFDNVTS YLKKKEERLQ QQLEKKQRRR SPPPGPDGHA
410
KKMRPGEATL SC
Length:412
Mass (Da):45,490
Last modified:February 11, 2002 - v2
Checksum:i394B11A2AFB1CADB
GO
Isoform 2 (identifier: P57081-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     243-243: Missing.

Note: No experimental confirmation available.
Show »
Length:411
Mass (Da):45,362
Checksum:iA32E06F66CE6574F
GO
Isoform 3 (identifier: P57081-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-146: Missing.

Show »
Length:266
Mass (Da):29,946
Checksum:i121DF7AE95363BD0
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti141E → K in CAB93144 (PubMed:10950928).Curated1
Sequence conflicti141E → K in CAB93145 (PubMed:10950928).Curated1
Sequence conflicti149L → V in CAB93144 (PubMed:10950928).Curated1
Sequence conflicti149L → V in CAB93145 (PubMed:10950928).Curated1
Sequence conflicti236V → A in BAG37500 (PubMed:14702039).Curated1
Sequence conflicti318R → K in BAG60319 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02012071K → N.2 PublicationsCorresponds to variant rs2248490dbSNPEnsembl.1
Natural variantiVAR_033121266P → S.2 PublicationsCorresponds to variant rs15736dbSNPEnsembl.1
Natural variantiVAR_033122390R → Q.Corresponds to variant rs6586250dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0369351 – 146Missing in isoform 3. 2 PublicationsAdd BLAST146
Alternative sequenceiVSP_036936243Missing in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ243912 mRNA. Translation: CAB93144.1.
AJ243913 mRNA. Translation: CAB93145.1.
AK056343 mRNA. Translation: BAG51684.1.
AK292923 mRNA. Translation: BAF85612.1.
AK298015 mRNA. Translation: BAG60319.1.
AK315008 mRNA. Translation: BAG37500.1.
AB039887 Genomic DNA. Translation: BAB13726.1.
AP001629 Genomic DNA. No translation available.
CH471079 Genomic DNA. Translation: EAX09528.1.
CH471079 Genomic DNA. Translation: EAX09529.1.
BC001074 mRNA. Translation: AAH01074.1.
BC006341 mRNA. Translation: AAH06341.1.
CCDSiCCDS13691.1. [P57081-1]
RefSeqiNP_001247403.1. NM_001260474.1. [P57081-2]
NP_001247404.1. NM_001260475.1. [P57081-3]
NP_001247405.1. NM_001260476.1. [P57081-3]
NP_001247406.1. NM_001260477.1. [P57081-3]
NP_061139.2. NM_018669.5. [P57081-1]
NP_387510.1. NM_033661.4. [P57081-1]
UniGeneiHs.248815.
Hs.711744.

Genome annotation databases

EnsembliENST00000330317; ENSP00000328671; ENSG00000160193. [P57081-1]
ENST00000398208; ENSP00000381266; ENSG00000160193. [P57081-1]
GeneIDi10785.
KEGGihsa:10785.
UCSCiuc002zci.5. human. [P57081-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ243912 mRNA. Translation: CAB93144.1.
AJ243913 mRNA. Translation: CAB93145.1.
AK056343 mRNA. Translation: BAG51684.1.
AK292923 mRNA. Translation: BAF85612.1.
AK298015 mRNA. Translation: BAG60319.1.
AK315008 mRNA. Translation: BAG37500.1.
AB039887 Genomic DNA. Translation: BAB13726.1.
AP001629 Genomic DNA. No translation available.
CH471079 Genomic DNA. Translation: EAX09528.1.
CH471079 Genomic DNA. Translation: EAX09529.1.
BC001074 mRNA. Translation: AAH01074.1.
BC006341 mRNA. Translation: AAH06341.1.
CCDSiCCDS13691.1. [P57081-1]
RefSeqiNP_001247403.1. NM_001260474.1. [P57081-2]
NP_001247404.1. NM_001260475.1. [P57081-3]
NP_001247405.1. NM_001260476.1. [P57081-3]
NP_001247406.1. NM_001260477.1. [P57081-3]
NP_061139.2. NM_018669.5. [P57081-1]
NP_387510.1. NM_033661.4. [P57081-1]
UniGeneiHs.248815.
Hs.711744.

3D structure databases

ProteinModelPortaliP57081.
SMRiP57081.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116001. 49 interactors.
DIPiDIP-61919N.
IntActiP57081. 5 interactors.
MINTiMINT-1440842.
STRINGi9606.ENSP00000328671.

PTM databases

iPTMnetiP57081.
PhosphoSitePlusiP57081.

Polymorphism and mutation databases

BioMutaiWDR4.
DMDMi20141943.

Proteomic databases

EPDiP57081.
MaxQBiP57081.
PaxDbiP57081.
PeptideAtlasiP57081.
PRIDEiP57081.

Protocols and materials databases

DNASUi10785.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000330317; ENSP00000328671; ENSG00000160193. [P57081-1]
ENST00000398208; ENSP00000381266; ENSG00000160193. [P57081-1]
GeneIDi10785.
KEGGihsa:10785.
UCSCiuc002zci.5. human. [P57081-1]

Organism-specific databases

CTDi10785.
GeneCardsiWDR4.
HGNCiHGNC:12756. WDR4.
HPAiHPA017381.
MIMi605924. gene.
neXtProtiNX_P57081.
OpenTargetsiENSG00000160193.
PharmGKBiPA37360.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3914. Eukaryota.
ENOG4111WRP. LUCA.
GeneTreeiENSGT00390000012174.
HOVERGENiHBG022880.
InParanoidiP57081.
KOiK15443.
OMAiASRIAYC.
OrthoDBiEOG091G0C2L.
PhylomeDBiP57081.
TreeFamiTF105877.

Enzyme and pathway databases

UniPathwayiUPA00989.
BioCyciZFISH:HS08458-MONOMER.
ReactomeiR-HSA-6782315. tRNA modification in the nucleus and cytosol.
SignaLinkiP57081.

Miscellaneous databases

ChiTaRSiWDR4. human.
GeneWikiiWDR4.
GenomeRNAii10785.
PROiP57081.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000160193.
CleanExiHS_WDR4.
GenevisibleiP57081. HS.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
HAMAPiMF_03056. TRM82. 1 hit.
InterProiIPR028884. Trm82.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 4 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiWDR4_HUMAN
AccessioniPrimary (citable) accession number: P57081
Secondary accession number(s): A8KA58
, B2RCA3, B4DNQ7, D3DSK3, Q9BVM5, Q9HCR3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: February 11, 2002
Last modified: November 30, 2016
This is version 138 of the entry and version 2 of the sequence. [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

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 21
    Human chromosome 21: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  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. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.