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Q9H867

- MT21D_HUMAN

UniProt

Q9H867 - MT21D_HUMAN

Protein

Protein-lysine methyltransferase METTL21D

Gene

VCPKMT

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
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    • History
      Entry version 98 (01 Oct 2014)
      Sequence version 2 (10 Jul 2007)
      Previous versions | rss
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    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)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei43 – 431S-adenosyl-L-methionine; via amide nitrogenBy similarity
    Binding sitei96 – 961S-adenosyl-L-methionineBy similarity
    Binding sitei126 – 1261S-adenosyl-L-methionine; via amide nitrogenBy similarity
    Binding sitei143 – 1431S-adenosyl-L-methionine; via carbonyl oxygenBy similarity

    GO - Molecular functioni

    1. protein binding Source: UniProtKB
    2. protein-lysine N-methyltransferase activity Source: UniProtKB

    GO - Biological processi

    1. peptidyl-lysine trimethylation Source: UniProtKB

    Keywords - Molecular functioni

    Methyltransferase, Transferase

    Keywords - Ligandi

    S-adenosyl-L-methionine

    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
    ProteomesiUP000005640: Chromosome 14

    Organism-specific databases

    HGNCiHGNC:20352. VCPKMT.

    Subcellular locationi

    Cytoplasm 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi73 – 731E → Q: Loss of methyltransferase activity. 1 Publication
    Mutagenesisi96 – 961D → A or V: Loss of methyltransferase activity. 1 Publication
    Mutagenesisi144 – 1441D → V: Loss of methyltransferase activity. 1 Publication

    Organism-specific databases

    PharmGKBiPA134866014.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 229228Protein-lysine methyltransferase METTL21DPRO_0000089937Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylalanine1 Publication

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiQ9H867.
    PaxDbiQ9H867.
    PRIDEiQ9H867.

    PTM databases

    PhosphoSiteiQ9H867.

    Expressioni

    Gene expression databases

    BgeeiQ9H867.
    CleanExiHS_C14orf138.
    GenevestigatoriQ9H867.

    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. 15 interactions.
    STRINGi9606.ENSP00000379201.

    Structurei

    Secondary structure

    1
    229
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi12 – 165
    Beta strandi17 – 215
    Beta strandi27 – 337
    Helixi44 – 5310
    Helixi56 – 594
    Beta strandi61 – 633
    Turni65 – 684
    Beta strandi70 – 756
    Helixi80 – 867
    Turni87 – 893
    Beta strandi91 – 966
    Helixi98 – 1003
    Helixi101 – 11010
    Helixi112 – 1143
    Beta strandi116 – 1238
    Beta strandi138 – 1447
    Helixi149 – 1513
    Helixi153 – 16210
    Beta strandi168 – 1747
    Helixi181 – 19212
    Turni193 – 1953
    Beta strandi196 – 2005
    Helixi203 – 2053
    Beta strandi208 – 2103
    Beta strandi215 – 2228

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4LG1X-ray1.80A/B/C7-229[»]
    ProteinModelPortaliQ9H867.
    SMRiQ9H867. Positions 11-228.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni75 – 773S-adenosyl-L-methionine bindingBy similarity

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0500.
    HOGENOMiHOG000007089.
    HOVERGENiHBG054931.
    InParanoidiQ9H867.
    OMAiETCIICC.
    OrthoDBiEOG7RJPT0.
    PhylomeDBiQ9H867.
    TreeFamiTF352990.

    Family and domain databases

    Gene3Di3.40.50.150. 1 hit.
    InterProiIPR019410. Nicotinamide_N-MeTfrase-like.
    IPR029063. SAM-dependent_MTases-like.
    [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. Align

    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

    MADTLESSLE DPLRSFVRVL EKRDGTVLRL QQYSSGGVGC VVWDAAIVLS    50
    KYLETPEFSG DGAHALSRRS VLELGSGTGA VGLMAATLGA DVVVTDLEEL 100
    QDLLKMNINM NKHLVTGSVQ AKVLKWGEEI EGFPSPPDFI LMADCIYYEE 150
    SLEPLLKTLK DISGFETCII CCYEQRTMGK NPEIEKKYFE LLQLDFDFEK 200
    IPLEKHDEEY RSEDIHIIYI RKKKSKFPS 229
    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 CAD62329.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti63 – 631A → D.
    Corresponds to variant rs11157729 [ dbSNP | Ensembl ].
    VAR_059621

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 8989MADTL…AATLG → MWGRLLQAFPPVPTPQSTLF YR in isoform 2. 1 PublicationVSP_008814Add
    BLAST
    Alternative sequencei90 – 229140Missing in isoform 3. 1 PublicationVSP_008815Add
    BLAST
    Alternative sequencei123 – 14422VLKWG…ILMAD → GGRNRRLSFSTRLHTDGRLH IL in isoform 1. 2 PublicationsVSP_026586Add
    BLAST
    Alternative sequencei145 – 22985Missing in isoform 1. 2 PublicationsVSP_026587Add
    BLAST
    Alternative sequencei191 – 22939Missing in isoform 2. 1 PublicationVSP_008816Add
    BLAST
    Alternative sequencei191 – 22535Missing in isoform 5. 1 PublicationVSP_043258Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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]
    XP_006720317.1. XM_006720254.1. [Q9H867-1]
    UniGeneiHs.558541.

    Genome annotation databases

    EnsembliENST00000395859; ENSP00000379200; ENSG00000100483. [Q9H867-5]
    ENST00000395860; ENSP00000379201; ENSG00000100483. [Q9H867-4]
    ENST00000491402; ENSP00000437113; ENSG00000100483. [Q9H867-1]
    GeneIDi79609.
    KEGGihsa:79609.
    UCSCiuc001wxo.1. human. [Q9H867-4]
    uc001wxp.1. human. [Q9H867-5]

    Polymorphism databases

    DMDMi152031572.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS41951.1. [Q9H867-5 ]
    CCDS9696.2. [Q9H867-4 ]
    RefSeqi NP_001035752.1. NM_001040662.1. [Q9H867-5 ]
    NP_078834.2. NM_024558.2. [Q9H867-4 ]
    XP_006720317.1. XM_006720254.1. [Q9H867-1 ]
    UniGenei Hs.558541.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4LG1 X-ray 1.80 A/B/C 7-229 [» ]
    ProteinModelPortali Q9H867.
    SMRi Q9H867. Positions 11-228.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 122744. 15 interactions.
    STRINGi 9606.ENSP00000379201.

    PTM databases

    PhosphoSitei Q9H867.

    Polymorphism databases

    DMDMi 152031572.

    Proteomic databases

    MaxQBi Q9H867.
    PaxDbi Q9H867.
    PRIDEi Q9H867.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000395859 ; ENSP00000379200 ; ENSG00000100483 . [Q9H867-5 ]
    ENST00000395860 ; ENSP00000379201 ; ENSG00000100483 . [Q9H867-4 ]
    ENST00000491402 ; ENSP00000437113 ; ENSG00000100483 . [Q9H867-1 ]
    GeneIDi 79609.
    KEGGi hsa:79609.
    UCSCi uc001wxo.1. human. [Q9H867-4 ]
    uc001wxp.1. human. [Q9H867-5 ]

    Organism-specific databases

    CTDi 79609.
    GeneCardsi GC14M050577.
    HGNCi HGNC:20352. VCPKMT.
    HPAi HPA001146.
    MIMi 615260. gene.
    neXtProti NX_Q9H867.
    PharmGKBi PA134866014.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG0500.
    HOGENOMi HOG000007089.
    HOVERGENi HBG054931.
    InParanoidi Q9H867.
    OMAi ETCIICC.
    OrthoDBi EOG7RJPT0.
    PhylomeDBi Q9H867.
    TreeFami TF352990.

    Miscellaneous databases

    GenomeRNAii 79609.
    NextBioi 68654.
    PROi Q9H867.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9H867.
    CleanExi HS_C14orf138.
    Genevestigatori Q9H867.

    Family and domain databases

    Gene3Di 3.40.50.150. 1 hit.
    InterProi IPR019410. Nicotinamide_N-MeTfrase-like.
    IPR029063. SAM-dependent_MTases-like.
    [Graphical view ]
    Pfami PF10294. Methyltransf_16. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53335. SSF53335. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "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 1 AND 2).
      Tissue: Prostate and Retinoblastoma.
    2. "Full-length cDNA libraries and normalization."
      Li W.B., Gruber C., Jessee J., Polayes D.
      Submitted (FEB-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
      Tissue: T-cell.
    3. "The DNA sequence and analysis of human chromosome 14."
      Heilig R., Eckenberg R., Petit J.-L., Fonknechten N., Da Silva C., Cattolico L., Levy M., Barbe V., De Berardinis V., Ureta-Vidal A., Pelletier E., Vico V., Anthouard V., Rowen L., Madan A., Qin S., Sun H., Du H.
      , Pepin K., Artiguenave F., Robert C., Cruaud C., Bruels T., Jaillon O., Friedlander L., Samson G., Brottier P., Cure S., Segurens B., Aniere F., Samain S., Crespeau H., Abbasi N., Aiach N., Boscus D., Dickhoff R., Dors M., Dubois I., Friedman C., Gouyvenoux M., James R., Madan A., Mairey-Estrada B., Mangenot S., Martins N., Menard M., Oztas S., Ratcliffe A., Shaffer T., Trask B., Vacherie B., Bellemere C., Belser C., Besnard-Gonnet M., Bartol-Mavel D., Boutard M., Briez-Silla S., Combette S., Dufosse-Laurent V., Ferron C., Lechaplais C., Louesse C., Muselet D., Magdelenat G., Pateau E., Petit E., Sirvain-Trukniewicz P., Trybou A., Vega-Czarny N., Bataille E., Bluet E., Bordelais I., Dubois M., Dumont C., Guerin T., Haffray S., Hammadi R., Muanga J., Pellouin V., Robert D., Wunderle E., Gauguet G., Roy A., Sainte-Marthe L., Verdier J., Verdier-Discala C., Hillier L.W., Fulton L., McPherson J., Matsuda F., Wilson R., Scarpelli C., Gyapay G., Wincker P., Saurin W., Quetier F., Waterston R., Hood L., Weissenbach J.
      Nature 421:601-607(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. "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; 4 AND 5).
      Tissue: Brain and Testis.
    5. "Lysine methylation of VCP by a member of a novel human protein methyltransferase family."
      Kernstock S., Davydova E., Jakobsson M., Moen A., Pettersen S., Maelandsmo G.M., Egge-Jacobsen W., Falnes P.O.
      Nat. Commun. 3:1038-1038(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, CATALYTIC ACTIVITY, INTERACTION WITH ALKBH6, MUTAGENESIS OF ASP-96 AND ASP-144.
    6. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
    7. "A newly uncovered group of distantly related lysine methyltransferases preferentially interact with molecular chaperones to regulate their activity."
      Cloutier P., Lavallee-Adam M., Faubert D., Blanchette M., Coulombe B.
      PLoS Genet. 9:E1003210-E1003210(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH ASPSCR1 AND UBXN6, SUBCELLULAR LOCATION, MUTAGENESIS OF GLU-73.

    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: October 1, 2014
    This is version 98 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

    External Data

    Dasty 3