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Protein

Protein-lysine methyltransferase METTL21D

Gene

VCPKMT

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

Functioni

Protein-lysine N-methyltransferase that specifically trimethylates 'Lys-315' of VCP/p97; this modification may decrease VCP ATPase activity.2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei43S-adenosyl-L-methionine; via amide nitrogen1 Publication1
Binding sitei96S-adenosyl-L-methionine1 Publication1
Binding sitei126S-adenosyl-L-methionine; via amide nitrogen1 Publication1
Binding sitei143S-adenosyl-L-methionine; via carbonyl oxygen1 Publication1
Binding sitei148S-adenosyl-L-methionine1 Publication1

GO - Molecular functioni

  • protein-lysine N-methyltransferase activity Source: UniProtKB

GO - Biological processi

  • peptidyl-lysine trimethylation Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciZFISH:ENSG00000100483-MONOMER.
SIGNORiQ9H867.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein-lysine methyltransferase METTL21D (EC:2.1.1.-)
Alternative name(s):
Methyltransferase-like protein 21D
VCP lysine methyltransferase
Short name:
VCP-KMT
Valosin-containing protein lysine methyltransferase
Gene namesi
Name:VCPKMT
Synonyms:C14orf138, METTL21D
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 14

Organism-specific databases

HGNCiHGNC:20352. VCPKMT.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi73E → Q: Loss of methyltransferase activity. 1 Publication1
Mutagenesisi96D → A or V: Loss of methyltransferase activity. 1 Publication1
Mutagenesisi144D → V: Loss of methyltransferase activity. 1 Publication1

Organism-specific databases

OpenTargetsiENSG00000100483.
PharmGKBiPA134866014.

Chemistry databases

ChEMBLiCHEMBL3588742.

Polymorphism and mutation databases

BioMutaiMETTL21D.
DMDMi152031572.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00000899372 – 229Protein-lysine methyltransferase METTL21DAdd BLAST228

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Modified residuei8PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9H867.
PaxDbiQ9H867.
PeptideAtlasiQ9H867.
PRIDEiQ9H867.

PTM databases

iPTMnetiQ9H867.
PhosphoSitePlusiQ9H867.

Expressioni

Gene expression databases

BgeeiENSG00000100483.
CleanExiHS_C14orf138.
GenevisibleiQ9H867. HS.

Organism-specific databases

HPAiHPA001146.

Interactioni

Subunit structurei

Interacts with ALKBH6. Interacts with ASPSCR1 and UBXN6; interaction with ASPSCR1, but not with UBXN6, enhances VCP methylation.2 Publications

Protein-protein interaction databases

BioGridi122744. 14 interactors.
STRINGi9606.ENSP00000379201.

Structurei

Secondary structure

1229
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi8 – 10Combined sources3
Helixi12 – 16Combined sources5
Beta strandi17 – 21Combined sources5
Beta strandi27 – 33Combined sources7
Helixi44 – 53Combined sources10
Helixi56 – 59Combined sources4
Beta strandi61 – 63Combined sources3
Turni65 – 68Combined sources4
Beta strandi70 – 75Combined sources6
Helixi80 – 86Combined sources7
Turni87 – 89Combined sources3
Beta strandi91 – 96Combined sources6
Helixi98 – 100Combined sources3
Helixi101 – 110Combined sources10
Helixi112 – 114Combined sources3
Beta strandi116 – 123Combined sources8
Beta strandi138 – 144Combined sources7
Helixi149 – 151Combined sources3
Helixi153 – 162Combined sources10
Beta strandi168 – 174Combined sources7
Helixi181 – 192Combined sources12
Turni193 – 195Combined sources3
Beta strandi196 – 200Combined sources5
Helixi203 – 205Combined sources3
Beta strandi208 – 210Combined sources3
Beta strandi215 – 222Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4LG1X-ray1.80A/B/C7-229[»]
ProteinModelPortaliQ9H867.
SMRiQ9H867.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni75 – 77S-adenosyl-L-methionine binding1 Publication3

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG410ISZE. Eukaryota.
ENOG4111MAT. LUCA.
GeneTreeiENSGT00550000074572.
HOGENOMiHOG000007089.
HOVERGENiHBG054931.
InParanoidiQ9H867.
OMAiEIPLEKH.
OrthoDBiEOG091G0NXA.
PhylomeDBiQ9H867.
TreeFamiTF352990.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR019410. Methyltransf_16.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF10294. Methyltransf_16. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.

Sequences (5)i

Sequence statusi: Complete.

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

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 4 (identifier: Q9H867-4) [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
MADTLESSLE DPLRSFVRVL EKRDGTVLRL QQYSSGGVGC VVWDAAIVLS
60 70 80 90 100
KYLETPEFSG DGAHALSRRS VLELGSGTGA VGLMAATLGA DVVVTDLEEL
110 120 130 140 150
QDLLKMNINM NKHLVTGSVQ AKVLKWGEEI EGFPSPPDFI LMADCIYYEE
160 170 180 190 200
SLEPLLKTLK DISGFETCII CCYEQRTMGK NPEIEKKYFE LLQLDFDFEK
210 220
IPLEKHDEEY RSEDIHIIYI RKKKSKFPS
Length:229
Mass (Da):25,807
Last modified:July 10, 2007 - v2
Checksum:i73B22FC1D14F12C7
GO
Isoform 1 (identifier: Q9H867-1) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     123-144: VLKWGEEIEGFPSPPDFILMAD → GGRNRRLSFSTRLHTDGRLHIL
     145-229: Missing.

Show »
Length:144
Mass (Da):15,565
Checksum:iA9570313CE131B75
GO
Isoform 2 (identifier: Q9H867-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-89: MADTLESSLE...AVGLMAATLG → MWGRLLQAFPPVPTPQSTLFYR
     191-229: Missing.

Note: No experimental confirmation available.
Show »
Length:123
Mass (Da):14,211
Checksum:i879E819E309F8610
GO
Isoform 3 (identifier: Q9H867-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     90-229: Missing.

Note: No experimental confirmation available.
Show »
Length:89
Mass (Da):9,371
Checksum:i1E7A543768BB6488
GO
Isoform 5 (identifier: Q9H867-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     191-225: Missing.

Note: No experimental confirmation available.
Show »
Length:194
Mass (Da):21,435
Checksum:i34E94BD4A4DB2EE7
GO

Sequence cautioni

The sequence CAD62329 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_05962163A → D.Corresponds to variant rs11157729dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0088141 – 89MADTL…AATLG → MWGRLLQAFPPVPTPQSTLF YR in isoform 2. 1 PublicationAdd BLAST89
Alternative sequenceiVSP_00881590 – 229Missing in isoform 3. 1 PublicationAdd BLAST140
Alternative sequenceiVSP_026586123 – 144VLKWG…ILMAD → GGRNRRLSFSTRLHTDGRLH IL in isoform 1. 2 PublicationsAdd BLAST22
Alternative sequenceiVSP_026587145 – 229Missing in isoform 1. 2 PublicationsAdd BLAST85
Alternative sequenceiVSP_008816191 – 229Missing in isoform 2. 1 PublicationAdd BLAST39
Alternative sequenceiVSP_043258191 – 225Missing in isoform 5. 1 PublicationAdd BLAST35

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK023982 mRNA. Translation: BAB14752.1.
AK129564 mRNA. Translation: BAC85183.1.
BX247997 mRNA. Translation: CAD62329.1. Different initiation.
AL109758 Genomic DNA. No translation available.
BC027585 mRNA. No translation available.
BC105118 mRNA. Translation: AAI05119.1.
BC143673 mRNA. Translation: AAI43674.1.
BC143674 mRNA. Translation: AAI43675.1.
CCDSiCCDS41951.1. [Q9H867-5]
CCDS9696.2. [Q9H867-4]
RefSeqiNP_001035752.1. NM_001040662.1. [Q9H867-5]
NP_078834.2. NM_024558.2. [Q9H867-4]
UniGeneiHs.558541.

Genome annotation databases

EnsembliENST00000395859; ENSP00000379200; ENSG00000100483. [Q9H867-5]
ENST00000395860; ENSP00000379201; ENSG00000100483. [Q9H867-4]
ENST00000491402; ENSP00000437113; ENSG00000100483. [Q9H867-1]
GeneIDi79609.
KEGGihsa:79609.
UCSCiuc001wxo.2. human. [Q9H867-4]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK023982 mRNA. Translation: BAB14752.1.
AK129564 mRNA. Translation: BAC85183.1.
BX247997 mRNA. Translation: CAD62329.1. Different initiation.
AL109758 Genomic DNA. No translation available.
BC027585 mRNA. No translation available.
BC105118 mRNA. Translation: AAI05119.1.
BC143673 mRNA. Translation: AAI43674.1.
BC143674 mRNA. Translation: AAI43675.1.
CCDSiCCDS41951.1. [Q9H867-5]
CCDS9696.2. [Q9H867-4]
RefSeqiNP_001035752.1. NM_001040662.1. [Q9H867-5]
NP_078834.2. NM_024558.2. [Q9H867-4]
UniGeneiHs.558541.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4LG1X-ray1.80A/B/C7-229[»]
ProteinModelPortaliQ9H867.
SMRiQ9H867.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122744. 14 interactors.
STRINGi9606.ENSP00000379201.

Chemistry databases

ChEMBLiCHEMBL3588742.

PTM databases

iPTMnetiQ9H867.
PhosphoSitePlusiQ9H867.

Polymorphism and mutation databases

BioMutaiMETTL21D.
DMDMi152031572.

Proteomic databases

EPDiQ9H867.
PaxDbiQ9H867.
PeptideAtlasiQ9H867.
PRIDEiQ9H867.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000395859; ENSP00000379200; ENSG00000100483. [Q9H867-5]
ENST00000395860; ENSP00000379201; ENSG00000100483. [Q9H867-4]
ENST00000491402; ENSP00000437113; ENSG00000100483. [Q9H867-1]
GeneIDi79609.
KEGGihsa:79609.
UCSCiuc001wxo.2. human. [Q9H867-4]

Organism-specific databases

CTDi79609.
GeneCardsiVCPKMT.
HGNCiHGNC:20352. VCPKMT.
HPAiHPA001146.
MIMi615260. gene.
neXtProtiNX_Q9H867.
OpenTargetsiENSG00000100483.
PharmGKBiPA134866014.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410ISZE. Eukaryota.
ENOG4111MAT. LUCA.
GeneTreeiENSGT00550000074572.
HOGENOMiHOG000007089.
HOVERGENiHBG054931.
InParanoidiQ9H867.
OMAiEIPLEKH.
OrthoDBiEOG091G0NXA.
PhylomeDBiQ9H867.
TreeFamiTF352990.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000100483-MONOMER.
SIGNORiQ9H867.

Miscellaneous databases

GenomeRNAii79609.
PROiQ9H867.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000100483.
CleanExiHS_C14orf138.
GenevisibleiQ9H867. HS.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR019410. Methyltransf_16.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF10294. Methyltransf_16. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiMT21D_HUMAN
AccessioniPrimary (citable) accession number: Q9H867
Secondary accession number(s): B7ZLA3
, B7ZLA4, Q2M2X3, Q86T12
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 7, 2003
Last sequence update: July 10, 2007
Last modified: November 30, 2016
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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 14
    Human chromosome 14: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.