P57081 (WDR4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
tRNA (guanine-N(7)-)-methyltransferase subunit WDR4

Alternative name(s):
WD repeat-containing protein 4

Gene names

Name:

WDR4

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	412 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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 change of the catalytic subunit. Ref.7
Pathway	tRNA modification; N(7)-methylguanine-tRNA biosynthesis.
Subunit structure	Forms a complex with METTL1.
Subcellular location	Nucleus Ref.8.
Sequence similarities	Belongs to the WD repeat TRM82 family. Contains 4 WD repeats.

Ontologies

Keywords
Biological process	tRNA processing
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Repeat WD repeat
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	RNA (guanine-N7)-methylation Inferred from direct assay Ref.7. Source: GOC tRNA modification Inferred from direct assay Ref.8. Source: UniProtKB
Cellular_component	cytoplasm Inferred from direct assay. Source: HPA nucleoplasm Inferred from direct assay PubMed 16780588. Source: UniProtKB
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: P57081-1)

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.

Isoform 2 (identifier: P57081-2)

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

Note: No experimental confirmation available.

Isoform 3 (identifier: P57081-3)

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

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed Ref.6
	Chain	2 – 412	411	tRNA (guanine-N(7)-)-methyltransferase subunit WDR4		PRO_0000051348
Regions
	Repeat	59 – 98	40	WD 1
	Repeat	143 – 183	41	WD 2
	Repeat	186 – 226	41	WD 3
	Repeat	287 – 327	41	WD 4
Amino acid modifications
	Modified residue	2	1	N-acetylalanine Ref.6
	Modified residue	391	1	Phosphoserine Ref.12
	Modified residue	411	1	Phosphoserine Ref.9
Natural variations
	Alternative sequence	1 – 146	146	Missing in isoform 3.		VSP_036935
	Alternative sequence	243	1	Missing in isoform 2.		VSP_036936
	Natural variant	71	1	K → N. Ref.2 Ref.4 Corresponds to variant rs2248490 [ dbSNP | Ensembl ].		VAR_020120
	Natural variant	266	1	P → S. Ref.2 Ref.5 Corresponds to variant rs15736 [ dbSNP | Ensembl ].		VAR_033121
	Natural variant	390	1	R → Q. Corresponds to variant rs6586250 [ dbSNP | Ensembl ].		VAR_033122
Experimental info
	Sequence conflict	141	1	E → K in CAB93144. Ref.1
	Sequence conflict	141	1	E → K in CAB93145. Ref.1
	Sequence conflict	149	1	L → V in CAB93144. Ref.1
	Sequence conflict	149	1	L → V in CAB93145. Ref.1
	Sequence conflict	236	1	V → A in BAG37500. Ref.2
	Sequence conflict	318	1	R → K in BAG60319. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified February 11, 2002. Version 2. Checksum: 394B11A2AFB1CADB	FASTA	412	45,490
	10 20 30 40 50 60 MAGSVGLALC GQTLVVRGGS RFLATSIASS DDDSLFIYDC SAAEKKSQEN KGEDAPLDQG 70 80 90 100 110 120 SGAILASTFS KSGSYFALTD DSKRLILFRT KPWQCLSVRT VARRCTALTF IASEEKVLVA 130 140 150 160 170 180 DKSGDVYSFS VLEPHGCGRL ELGHLSMLLD VAVSPDDRFI LTADRDEKIR VSWAAAPHSI 190 200 210 220 230 240 ESFCLGHTEF VSRISVVPTQ PGLLLSSSGD GTLRLWEYRS GRQLHCCHLA SLQELVDPQA 250 260 270 280 290 300 PQKFAASRIA FWCQENCVAL LCDGTPVVYI FQLDARRQQL VYRQQLAFQH QVWDVAFEET 310 320 330 340 350 360 QGLWVLQDCQ EAPLVLYRPV GDQWQSVPES TVLKKVSGVL RGNWAMLEGS AGADASFSSL 370 380 390 400 410 YKATFDNVTS YLKKKEERLQ QQLEKKQRRR SPPPGPDGHA KKMRPGEATL SC
	Isoform 2 [UniParc]. Checksum: A32E06F66CE6574F	FASTA	411	45,362
	10 20 30 40 50 60 MAGSVGLALC GQTLVVRGGS RFLATSIASS DDDSLFIYDC SAAEKKSQEN KGEDAPLDQG 70 80 90 100 110 120 SGAILASTFS KSGSYFALTD DSKRLILFRT KPWQCLSVRT VARRCTALTF IASEEKVLVA 130 140 150 160 170 180 DKSGDVYSFS VLEPHGCGRL ELGHLSMLLD VAVSPDDRFI LTADRDEKIR VSWAAAPHSI 190 200 210 220 230 240 ESFCLGHTEF VSRISVVPTQ PGLLLSSSGD GTLRLWEYRS GRQLHCCHLA SLQELVDPQA 250 260 270 280 290 300 PQFAASRIAF WCQENCVALL CDGTPVVYIF QLDARRQQLV YRQQLAFQHQ VWDVAFEETQ 310 320 330 340 350 360 GLWVLQDCQE APLVLYRPVG DQWQSVPEST VLKKVSGVLR GNWAMLEGSA GADASFSSLY 370 380 390 400 410 KATFDNVTSY LKKKEERLQQ QLEKKQRRRS PPPGPDGHAK KMRPGEATLS C
	Isoform 3 [UniParc]. Checksum: 121DF7AE95363BD0	FASTA	266	29,946
	10 20 30 40 50 60 MLLDVAVSPD DRFILTADRD EKIRVSWAAA PHSIESFCLG HTEFVSRISV VPTQPGLLLS 70 80 90 100 110 120 SSGDGTLRLW EYRSGRQLHC CHLASLQELV DPQAPQKFAA SRIAFWCQEN CVALLCDGTP 130 140 150 160 170 180 VVYIFQLDAR RQQLVYRQQL AFQHQVWDVA FEETQGLWVL QDCQEAPLVL YRPVGDQWQS 190 200 210 220 230 240 VPESTVLKKV SGVLRGNWAM LEGSAGADAS FSSLYKATFD NVTSYLKKKE ERLQQQLEKK 250 260 QRRRSPPPGP DGHAKKMRPG EATLSC

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases 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, 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]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-411, MASS SPECTROMETRY. 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]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] 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, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00025718. IPI00929688. IPI00929723.
RefSeq	NP_001247403.1. NM_001260474.1. NP_001247404.1. NM_001260475.1. NP_001247405.1. NM_001260476.1. NP_001247406.1. NM_001260477.1. NP_061139.2. NM_018669.5. NP_387510.1. NM_033661.4.
UniGene	Hs.248815. Hs.711744.
3D structure databases
ProteinModelPortal	P57081.
ModBase	Search...
Protein-protein interaction databases
IntAct	P57081. 1 interaction.
MINT	MINT-1440842.
STRING	9606.ENSP00000328671.
PTM databases
PhosphoSite	P57081.
Polymorphism databases
DMDM	20141943.
Proteomic databases
PaxDb	P57081.
PeptideAtlas	P57081.
PRIDE	P57081.
Protocols and materials databases
DNASU	10785.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000330317; ENSP00000328671; ENSG00000160193. ENST00000398208; ENSP00000381266; ENSG00000160193.
GeneID	10785.
KEGG	hsa:10785.
UCSC	uc002zci.3. human. uc010gpg.1. human.
Organism-specific databases
CTD	10785.
GeneCards	GC21M044263.
HGNC	HGNC:12756. WDR4.
HPA	HPA017381.
MIM	605924. gene.
neXtProt	NX_P57081.
PharmGKB	PA37360.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG253533.
HOVERGEN	HBG022880.
InParanoid	P57081.
KO	K15443.
OMA	WVLQDCR.
OrthoDB	EOG4G1MGZ.
PhylomeDB	P57081.
Enzyme and pathway databases
UniPathway	UPA00989.
Gene expression databases
Bgee	P57081.
CleanEx	HS_WDR4.
Genevestigator	P57081.
GermOnline	ENSG00000160193. Homo sapiens.
Family and domain databases
Gene3D	2.130.10.10. 1 hit.
InterPro	IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR017986. WD40_repeat_dom. [Graphical view]
Pfam	PF00400. WD40. 2 hits. [Graphical view]
SMART	SM00320. WD40. 4 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. False negative. PS50082. WD_REPEATS_2. 1 hit. PS50294. WD_REPEATS_REGION. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	WDR4. human.
GenomeRNAi	10785.
NextBio	40960.
SOURCE	Search...

Entry information

Entry name

WDR4_HUMAN

Accession

Primary (citable) accession number: P57081
Secondary accession number(s): A8KA58 , B2RCA3, B4DNQ7, D3DSK3, Q9BVM5, Q9HCR3

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 1, 2000
Last sequence update:	February 11, 2002
Last modified:	May 1, 2013
This is version 104 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.