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P57081

- WDR4_HUMAN

UniProt

P57081 - WDR4_HUMAN

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Protein
tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4
Gene
WDR4
Organism
Homo sapiens (Human)
Status
Reviewed - 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.1 Publication

Pathwayi

GO - Molecular functioni

  1. protein binding Source: UniProtKB

GO - Biological processi

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

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

SignaLinkiP57081.
UniPathwayiUPA00989.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4
Alternative name(s):
WD repeat-containing protein 4
Gene namesi
Name:WDR4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 21

Organism-specific databases

HGNCiHGNC:12756. WDR4.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: HPA
  2. nucleoplasm Source: UniProtKB
  3. nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA37360.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 412411tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4UniRule annotation
PRO_0000051348Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanine1 Publication
Modified residuei391 – 3911Phosphoserine1 Publication
Modified residuei411 – 4111Phosphoserine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiP57081.
PaxDbiP57081.
PeptideAtlasiP57081.
PRIDEiP57081.

PTM databases

PhosphoSiteiP57081.

Expressioni

Gene expression databases

BgeeiP57081.
CleanExiHS_WDR4.
GenevestigatoriP57081.

Organism-specific databases

HPAiHPA017381.

Interactioni

Subunit structurei

Forms a heterodimer with the catalytic subunit METTL1.

Protein-protein interaction databases

BioGridi116001. 37 interactions.
IntActiP57081. 1 interaction.
MINTiMINT-1440842.
STRINGi9606.ENSP00000328671.

Structurei

3D structure databases

ProteinModelPortaliP57081.
SMRiP57081. Positions 70-292.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati59 – 9840WD 1UniRule annotation
Add
BLAST
Repeati100 – 13940WD 2UniRule annotation
Add
BLAST
Repeati143 – 18341WD 3UniRule annotation
Add
BLAST
Repeati186 – 22641WD 4UniRule annotation
Add
BLAST
Repeati287 – 32741WD 5UniRule annotation
Add
BLAST

Sequence similaritiesi

Belongs to the WD repeat TRM82 family.
Contains 5 WD repeats.

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiNOG253533.
HOVERGENiHBG022880.
InParanoidiP57081.
KOiK15443.
OMAiTIANSND.
OrthoDBiEOG7GXPCK.
PhylomeDBiP57081.
TreeFamiTF105877.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
HAMAPiMF_03056. TRM82.
InterProiIPR028884. Trm82.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 2 hits.
[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. Align

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

MAGSVGLALC GQTLVVRGGS RFLATSIASS DDDSLFIYDC SAAEKKSQEN    50
KGEDAPLDQG SGAILASTFS KSGSYFALTD DSKRLILFRT KPWQCLSVRT 100
VARRCTALTF IASEEKVLVA DKSGDVYSFS VLEPHGCGRL ELGHLSMLLD 150
VAVSPDDRFI LTADRDEKIR VSWAAAPHSI ESFCLGHTEF VSRISVVPTQ 200
PGLLLSSSGD GTLRLWEYRS GRQLHCCHLA SLQELVDPQA PQKFAASRIA 250
FWCQENCVAL LCDGTPVVYI FQLDARRQQL VYRQQLAFQH QVWDVAFEET 300
QGLWVLQDCQ EAPLVLYRPV GDQWQSVPES TVLKKVSGVL RGNWAMLEGS 350
AGADASFSSL YKATFDNVTS YLKKKEERLQ QQLEKKQRRR SPPPGPDGHA 400
KKMRPGEATL SC 412
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

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti71 – 711K → N.2 Publications
Corresponds to variant rs2248490 [ dbSNP | Ensembl ].
VAR_020120
Natural varianti266 – 2661P → S.2 Publications
Corresponds to variant rs15736 [ dbSNP | Ensembl ].
VAR_033121
Natural varianti390 – 3901R → Q.
Corresponds to variant rs6586250 [ dbSNP | Ensembl ].
VAR_033122

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 146146Missing in isoform 3.
VSP_036935Add
BLAST
Alternative sequencei243 – 2431Missing in isoform 2.
VSP_036936

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti141 – 1411E → K in CAB93144. 1 Publication
Sequence conflicti141 – 1411E → K in CAB93145. 1 Publication
Sequence conflicti149 – 1491L → V in CAB93144. 1 Publication
Sequence conflicti149 – 1491L → V in CAB93145. 1 Publication
Sequence conflicti236 – 2361V → A in BAG37500. 1 Publication
Sequence conflicti318 – 3181R → K in BAG60319. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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]
XP_006724022.1. XM_006723959.1. [P57081-1]
UniGeneiHs.248815.
Hs.711744.

Genome annotation databases

EnsembliENST00000330317; ENSP00000328671; ENSG00000160193. [P57081-1]
ENST00000398208; ENSP00000381266; ENSG00000160193. [P57081-1]
GeneIDi10785.
KEGGihsa:10785.
UCSCiuc002zci.4. human. [P57081-1]
uc010gpg.2. human. [P57081-2]

Polymorphism databases

DMDMi20141943.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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 .
CCDSi CCDS13691.1. [P57081-1 ]
RefSeqi NP_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 ]
XP_006724022.1. XM_006723959.1. [P57081-1 ]
UniGenei Hs.248815.
Hs.711744.

3D structure databases

ProteinModelPortali P57081.
SMRi P57081. Positions 70-292.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 116001. 37 interactions.
IntActi P57081. 1 interaction.
MINTi MINT-1440842.
STRINGi 9606.ENSP00000328671.

PTM databases

PhosphoSitei P57081.

Polymorphism databases

DMDMi 20141943.

Proteomic databases

MaxQBi P57081.
PaxDbi P57081.
PeptideAtlasi P57081.
PRIDEi P57081.

Protocols and materials databases

DNASUi 10785.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000330317 ; ENSP00000328671 ; ENSG00000160193 . [P57081-1 ]
ENST00000398208 ; ENSP00000381266 ; ENSG00000160193 . [P57081-1 ]
GeneIDi 10785.
KEGGi hsa:10785.
UCSCi uc002zci.4. human. [P57081-1 ]
uc010gpg.2. human. [P57081-2 ]

Organism-specific databases

CTDi 10785.
GeneCardsi GC21M044263.
HGNCi HGNC:12756. WDR4.
HPAi HPA017381.
MIMi 605924. gene.
neXtProti NX_P57081.
PharmGKBi PA37360.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG253533.
HOVERGENi HBG022880.
InParanoidi P57081.
KOi K15443.
OMAi TIANSND.
OrthoDBi EOG7GXPCK.
PhylomeDBi P57081.
TreeFami TF105877.

Enzyme and pathway databases

UniPathwayi UPA00989 .
SignaLinki P57081.

Miscellaneous databases

ChiTaRSi WDR4. human.
GeneWikii WDR4.
GenomeRNAii 10785.
NextBioi 40960.
PROi P57081.
SOURCEi Search...

Gene expression databases

Bgeei P57081.
CleanExi HS_WDR4.
Genevestigatori P57081.

Family and domain databases

Gene3Di 2.130.10.10. 1 hit.
HAMAPi MF_03056. TRM82.
InterProi IPR028884. Trm82.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view ]
Pfami PF00400. WD40. 2 hits.
[Graphical view ]
SMARTi SM00320. WD40. 4 hits.
[Graphical view ]
SUPFAMi SSF50978. SSF50978. 1 hit.
PROSITEi PS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation and characterization of a human chromosome 21q22.3 gene (WDR4) and its mouse homologue that code for a WD-repeat protein."
    Michaud J., Kudoh J., Berry A., Bonne-Tamir B., Lalioti M.D., Rossier C., Shibuya K., Kawasaki K., Asakawa S., Minoshima S., Shimizu N., Antonarakis S.E., Scott H.S.
    Genomics 68:71-79(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1).
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 2 AND 3), VARIANTS ASN-71 AND SER-266.
    Tissue: Lung and Trachea.
  3. "The DNA sequence of human chromosome 21."
    Hattori M., Fujiyama A., Taylor T.D., Watanabe H., Yada T., Park H.-S., Toyoda A., Ishii K., Totoki Y., Choi D.-K., Groner Y., Soeda E., Ohki M., Takagi T., Sakaki Y., Taudien S., Blechschmidt K., Polley A.
    , Menzel U., Delabar J., Kumpf K., Lehmann R., Patterson D., Reichwald K., Rump A., Schillhabel M., Schudy A., Zimmermann W., Rosenthal A., Kudoh J., Shibuya K., Kawasaki K., Asakawa S., Shintani A., Sasaki T., Nagamine K., Mitsuyama S., Antonarakis S.E., Minoshima S., Shimizu N., Nordsiek G., Hornischer K., Brandt P., Scharfe M., Schoen O., Desario A., Reichelt J., Kauer G., Bloecker H., Ramser J., Beck A., Klages S., Hennig S., Riesselmann L., Dagand E., Wehrmeyer S., Borzym K., Gardiner K., Nizetic D., Francis F., Lehrach H., Reinhardt R., Yaspo M.-L.
    Nature 405:311-319(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ASN-71.
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3), VARIANT SER-266.
    Tissue: Lung and Uterus.
  6. Bienvenut W.V.
    Submitted (JAN-2010) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 2-17 AND 105-116, CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY.
    Tissue: Ovarian carcinoma.
  7. "Two proteins that form a complex are required for 7-methylguanosine modification of yeast tRNA."
    Alexandrov A., Martzen M.R., Phizicky E.M.
    RNA 8:1253-1266(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH METTL1.
  8. "The tRNA methylase METTL1 is phosphorylated and inactivated by PKB and RSK in vitro and in cells."
    Cartlidge R.A., Knebel A., Peggie M., Alexandrov A., Phizicky E.M., Cohen P.
    EMBO J. 24:1696-1705(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, INTERACTION WITH METTL1.
  9. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-411, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  10. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  11. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
    Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
    Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-391, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

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: September 3, 2014
This is version 117 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

External Data

Dasty 3

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