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NTMT1 N-terminal Xaa-Pro-Lys N-methyltransferase 1 [ Homo sapiens (human) ]

Gene ID: 28989, updated on 7-Jun-2020

Summary

Official Symbol
NTMT1provided by HGNC
Official Full Name
N-terminal Xaa-Pro-Lys N-methyltransferase 1provided by HGNC
Primary source
HGNC:HGNC:23373
See related
Ensembl:ENSG00000148335 MIM:613560
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NRMT; NRMT1; NTM1A; AD-003; HOMT1A; C9orf32; METTL11A
Summary
The METTL11A gene encodes an N-terminal methyltransferase for the RAN (MIM 601179) guanine nucleotide exchange factor regulator of chromosome condensation 1 (RCC1; MIM 179710). METTL11A enzyme alpha-N-methylates other protein targets such as SET (MIM 600960) and RB (MIM 180200).[supplied by OMIM, Nov 2010]
Expression
Ubiquitous expression in testis (RPKM 16.4), adrenal (RPKM 9.8) and 25 other tissues See more
Orthologs

Genomic context

See NTMT1 in Genome Data Viewer
Location:
9q34.11
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (129608884..129636742)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (132371036..132397879)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 9056 Neighboring gene uncharacterized LOC105376292 Neighboring gene chromosome 9 open reading frame 50 Neighboring gene ankyrin repeat and SOCS box containing 6 Neighboring gene paired related homeobox 2 Neighboring gene PRRX2 antisense RNA 1 Neighboring gene prostaglandin E synthase

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

  • Homologs of the NTMT1 gene: The NTMT1 gene is conserved in chimpanzee, Rhesus monkey, dog, cow, mouse, rat, chicken, zebrafish, fruit fly, mosquito, C.elegans, S.cerevisiae, K.lactis, E.gossypii, S.pombe, M.oryzae, N.crassa, A.thaliana, rice, and frog.
  • Orthologs from Annotation Pipeline: 322 organisms have orthologs with human gene NTMT1

Gene Ontology Provided by GOA

Function Evidence Code Pubs
N-terminal protein N-methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
N-terminal protein N-methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
histone methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
N-terminal peptidyl-alanine methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
N-terminal peptidyl-alanine trimethylation IEA
Inferred from Electronic Annotation
more info
 
N-terminal peptidyl-glycine methylation IDA
Inferred from Direct Assay
more info
PubMed 
N-terminal peptidyl-proline dimethylation IDA
Inferred from Direct Assay
more info
PubMed 
N-terminal peptidyl-proline methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
N-terminal peptidyl-serine dimethylation IDA
Inferred from Direct Assay
more info
PubMed 
N-terminal peptidyl-serine methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
N-terminal peptidyl-serine trimethylation IDA
Inferred from Direct Assay
more info
PubMed 
N-terminal protein amino acid methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromosome segregation IMP
Inferred from Mutant Phenotype
more info
PubMed 
histone methylation IDA
Inferred from Direct Assay
more info
PubMed 
spindle organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
N-terminal Xaa-Pro-Lys N-methyltransferase 1
Names
N-terminal RCC1 methyltransferase
X-Pro-Lys N-terminal protein methyltransferase 1A
alpha N-terminal protein methyltransferase 1A
methyltransferase-like protein 11A
NP_001273725.1
NP_001273726.1
NP_001273727.1
NP_001273728.1
NP_001273729.1
NP_001273730.1
NP_001273731.1
NP_001273732.1
NP_054783.2
XP_005251996.1
XP_016870131.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001286796.1NP_001273725.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform a

    See identical proteins and their annotated locations for NP_001273725.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1 through 5 all encode isoform a.
    Source sequence(s)
    AK298840, BC001396, BG468453
    Consensus CDS
    CCDS35160.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    A0A024R8E4
    Related
    ENSP00000361564.1, ENST00000372486.5
    Conserved Domains (1) summary
    pfam05891
    Location:8223
    Methyltransf_PK; AdoMet dependent proline di-methyltransferase
  2. NM_001286797.1NP_001273726.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform a

    See identical proteins and their annotated locations for NP_001273726.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 through 5 all encode isoform a.
    Source sequence(s)
    AK298840, BI083998
    Consensus CDS
    CCDS35160.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    A0A024R8E4
    Related
    ENSP00000478521.1, ENST00000613644.4
    Conserved Domains (1) summary
    pfam05891
    Location:8223
    Methyltransf_PK; AdoMet dependent proline di-methyltransferase
  3. NM_001286798.1NP_001273727.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform a

    See identical proteins and their annotated locations for NP_001273727.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1 through 5 all encode isoform a.
    Source sequence(s)
    AK298840, BQ636193, BQ923165, CN406947
    Consensus CDS
    CCDS35160.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    A0A024R8E4
    Related
    ENSP00000483489.1, ENST00000611055.4
    Conserved Domains (1) summary
    pfam05891
    Location:8223
    Methyltransf_PK; AdoMet dependent proline di-methyltransferase
  4. NM_001286799.1NP_001273728.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform a

    See identical proteins and their annotated locations for NP_001273728.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1 through 5 all encode isoform a.
    Source sequence(s)
    AK298840, BM554138
    Consensus CDS
    CCDS35160.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    A0A024R8E4
    Related
    ENSP00000361558.1, ENST00000372480.1
    Conserved Domains (1) summary
    pfam05891
    Location:8223
    Methyltransf_PK; AdoMet dependent proline di-methyltransferase
  5. NM_001286800.1NP_001273729.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform b

    See identical proteins and their annotated locations for NP_001273729.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, and uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (b) has a distinct C-terminus and is shorter than isoform a. Both variants 6 and 7 encode isoform b.
    Source sequence(s)
    AK298840, BQ636193
    Consensus CDS
    CCDS69682.1
    UniProtKB/Swiss-Prot
    Q9BV86
    Related
    ENSP00000361559.3, ENST00000372481.7
    Conserved Domains (1) summary
    cl17173
    Location:8118
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  6. NM_001286801.1NP_001273730.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform b

    See identical proteins and their annotated locations for NP_001273730.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, and uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (b) has a distinct C-terminus and is shorter than isoform a. Both variants 6 and 7 encode isoform b.
    Source sequence(s)
    AK298840, BE392289, BQ636193, HY058177
    Consensus CDS
    CCDS69682.1
    UniProtKB/Swiss-Prot
    Q9BV86
    Conserved Domains (1) summary
    cl17173
    Location:8118
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  7. NM_001286802.1NP_001273731.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform c

    See identical proteins and their annotated locations for NP_001273731.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a. Both variants 8 and 9 encode isoform c.
    Source sequence(s)
    AK298840, BQ636193, HY058177
    Consensus CDS
    CCDS75918.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    S4R338
    Related
    ENSP00000484447.1, ENST00000617943.4
    Conserved Domains (1) summary
    cl17173
    Location:1135
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  8. NM_001286803.1NP_001273732.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform c

    See identical proteins and their annotated locations for NP_001273732.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a. Both variants 8 and 9 encode isoform c.
    Source sequence(s)
    AK298840, BM009113, BQ636193
    Consensus CDS
    CCDS75918.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    S4R338
    Related
    ENSP00000473900.1, ENST00000482347.1
    Conserved Domains (1) summary
    cl17173
    Location:1135
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  9. NM_014064.4NP_054783.2  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform a

    See identical proteins and their annotated locations for NP_054783.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 through 5 all encode isoform a.
    Source sequence(s)
    AK298840, AL590369, BC001396, BQ636193
    Consensus CDS
    CCDS35160.1
    UniProtKB/Swiss-Prot
    Q9BV86
    UniProtKB/TrEMBL
    A0A024R8E4
    Related
    ENSP00000361561.4, ENST00000372483.8
    Conserved Domains (1) summary
    pfam05891
    Location:8223
    Methyltransf_PK; AdoMet dependent proline di-methyltransferase

RNA

  1. NR_104596.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10) contains an alternate 5' terminal exon, and uses alternate splice sites in two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK298840, AK307056, BQ636193

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    129608884..129636742
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005251939.4XP_005251996.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform X1

    See identical proteins and their annotated locations for XP_005251996.1

    UniProtKB/TrEMBL
    S4R338
    Conserved Domains (1) summary
    cl17173
    Location:1135
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  2. XM_017014642.2XP_016870131.1  N-terminal Xaa-Pro-Lys N-methyltransferase 1 isoform X1

    UniProtKB/TrEMBL
    S4R338
    Conserved Domains (1) summary
    cl17173
    Location:1135
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
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