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Protein

N-terminal Xaa-Pro-Lys N-methyltransferase 1

Gene

NTMT1

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

Functioni

Distributive alpha-N-methyltransferase that methylates the N-terminus of target proteins containing the N-terminal motif [Ala/Gly/Pro/Ser]-Pro-Lys when the initiator Met is cleaved. Specifically catalyzes mono-, di- or tri-methylation of the exposed alpha-amino group of the Ala, Gly or Ser residue in the [Ala/Gly/Ser]-Pro-Lys motif and mono- or di-methylation of Pro in the Pro-Pro-Lys motif. Some of the substrates may be primed by METTL11B-mediated monomethylation (PubMed:24090352). Catalyzes the trimethylation of the N-terminal Gly in CENPA (after removal of Met-1). Responsible for the N-terminal methylation of KLHL31, MYL2, MYL3, RB1, RCC1, RPL23A and SET. Required during mitosis for normal bipolar spindle formation and chromosome segregation via its action on RCC1.4 Publications

Catalytic activityi

3 S-adenosyl-L-methionine + N-terminal-(A,S)PK-[protein] = 3 S-adenosyl-L-homocysteine + N-terminal-N,N,N-trimethyl-N-(A,S)PK-[protein].2 Publications
2 S-adenosyl-L-methionine + N-terminal-PPK-[protein] = 2 S-adenosyl-L-homocysteine + N-terminal-N,N-dimethyl-N-PPK-[protein].2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei69S-adenosyl-L-methionine; via carbonyl oxygenCombined sources2 Publications1
Binding sitei74S-adenosyl-L-methionineCombined sources2 Publications1
Binding sitei135S-adenosyl-L-methionine; via carbonyl oxygenCombined sources2 Publications1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionMethyltransferase, Transferase
LigandS-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciMetaCyc:ENSG00000148335-MONOMER
BRENDAi2.1.1.244 2681

Names & Taxonomyi

Protein namesi
Recommended name:
N-terminal Xaa-Pro-Lys N-methyltransferase 1 (EC:2.1.1.2441 Publication)
Alternative name(s):
Alpha N-terminal protein methyltransferase 1A
Methyltransferase-like protein 11A
N-terminal RCC1 methyltransferase
X-Pro-Lys N-terminal protein methyltransferase 1A
Short name:
NTM1A
Cleaved into the following chain:
Gene namesi
Name:NTMT1
Synonyms:C9orf32, METTL11A, NRMT, NRMT1
ORF Names:AD-003
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

EuPathDBiHostDB:ENSG00000148335.14
HGNCiHGNC:23373 NTMT1
MIMi613560 gene
neXtProtiNX_Q9BV86

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi19Y → A or F: Decreased methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi19Y → A: Reduced methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi20W → A, M or Y: Nearly abolishes methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi136W → L: Strongly reduces methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi167D → A: Does not affect methyltransferase activity. 1 Publication1
Mutagenesisi167D → N or Q: Abolishes methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi168N → A: Decreased methyltransferase activity. 2 Publications1
Mutagenesisi168N → K: Loss of methyltransferase activity. 1 Publication1
Mutagenesisi177D → A: Induces a slight decrease in methyltransferase activity. 1 Publication1
Mutagenesisi177D → K: Induces a strong decrease in methyltransferase activity. 1 Publication1
Mutagenesisi177D → N: Strongly reduces methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi180D → A: Induces a decrease in methyltransferase activity. 1 Publication1
Mutagenesisi180D → K: Induces a strong decrease in methyltransferase activity. 1 Publication1
Mutagenesisi180D → N: Reduced methyltransferase activity with CENPA. 1 Publication1
Mutagenesisi182S → A: Induces a slight decrease in methyltransferase activity. 1 Publication1
Mutagenesisi182S → K: Induces a strong decrease in methyltransferase activity. 1 Publication1

Organism-specific databases

OpenTargetsiENSG00000148335
PharmGKBiPA162395788

Polymorphism and mutation databases

DMDMi74761281

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004232281 – 223N-terminal Xaa-Pro-Lys N-methyltransferase 1Add BLAST223
Initiator methionineiRemoved; alternateCombined sources1 Publication
ChainiPRO_00001192882 – 223N-terminal Xaa-Pro-Lys N-methyltransferase 1, N-terminally processedAdd BLAST222

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei2N-acetylthreonine; in N-terminal Xaa-Pro-Lys N-methyltransferase 1, N-terminally processedCombined sources1 Publication1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9BV86
MaxQBiQ9BV86
PaxDbiQ9BV86
PeptideAtlasiQ9BV86
PRIDEiQ9BV86
ProteomicsDBi79180
79181 [Q9BV86-2]
TopDownProteomicsiQ9BV86-1 [Q9BV86-1]

PTM databases

iPTMnetiQ9BV86
PhosphoSitePlusiQ9BV86

Expressioni

Gene expression databases

BgeeiENSG00000148335 Expressed in 196 organ(s), highest expression level in left adrenal gland
CleanExiHS_METTL11A
ExpressionAtlasiQ9BV86 baseline and differential
GenevisibleiQ9BV86 HS

Organism-specific databases

HPAiHPA020092
HPA058420

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
RCC1P187544EBI-373016,EBI-992720

Protein-protein interaction databases

BioGridi118810, 25 interactors
DIPiDIP-31241N
IntActiQ9BV86, 7 interactors
STRINGi9606.ENSP00000361558

Structurei

Secondary structure

1223
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ9BV86
SMRiQ9BV86
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9BV86

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni91 – 93S-adenosyl-L-methionine bindingCombined sources2 Publications3
Regioni119 – 120S-adenosyl-L-methionine bindingCombined sources2 Publications2

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG3178 Eukaryota
ENOG410XS7T LUCA
GeneTreeiENSGT00390000008371
HOGENOMiHOG000161910
HOVERGENiHBG054992
InParanoidiQ9BV86
KOiK16219
OMAiIYHVYSL
OrthoDBiEOG091G0NA7
PhylomeDBiQ9BV86
TreeFamiTF314174

Family and domain databases

InterProiView protein in InterPro
IPR008576 MeTrfase_NTM1
IPR029063 SAM-dependent_MTases
PANTHERiPTHR12753 PTHR12753, 1 hit
PfamiView protein in Pfam
PF05891 Methyltransf_PK, 1 hit
PIRSFiPIRSF016958 DUF858_MeTrfase_lik, 1 hit
SUPFAMiSSF53335 SSF53335, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q9BV86-1) [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
        10         20         30         40         50
MTSEVIEDEK QFYSKAKTYW KQIPPTVDGM LGGYGHISSI DINSSRKFLQ
60 70 80 90 100
RFLREGPNKT GTSCALDCGA GIGRITKRLL LPLFREVDMV DITEDFLVQA
110 120 130 140 150
KTYLGEEGKR VRNYFCCGLQ DFTPEPDSYD VIWIQWVIGH LTDQHLAEFL
160 170 180 190 200
RRCKGSLRPN GIIVIKDNMA QEGVILDDVD SSVCRDLDVV RRIICSAGLS
210 220
LLAEERQENL PDEIYHVYSF ALR
Length:223
Mass (Da):25,387
Last modified:January 23, 2007 - v3
Checksum:i4A0EC492D9B52C49
GO
Isoform 2 (identifier: Q9BV86-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     111-223: VRNYFCCGLQ...IYHVYSFALR → ATSPISTWPSSCGAARAASAPTASSSSKTTWPRRA

Note: No experimental confirmation available.
Show »
Length:145
Mass (Da):15,896
Checksum:i4D5E90507357F03B
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
S4R338S4R338_HUMAN
N-terminal Xaa-Pro-Lys N-methyltran...
NTMT1
135Annotation score:
S4R3J7S4R3J7_HUMAN
N-terminal Xaa-Pro-Lys N-methyltran...
NTMT1
109Annotation score:
S4R344S4R344_HUMAN
N-terminal Xaa-Pro-Lys N-methyltran...
NTMT1
70Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti25P → L in BAF85021 (PubMed:14702039).Curated1
Sequence conflicti39S → SS in AAF14859 (PubMed:10931946).Curated1
Sequence conflicti131V → A in BAF83646 (PubMed:14702039).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_039886111 – 223VRNYF…SFALR → ATSPISTWPSSCGAARAASA PTASSSSKTTWPRRA in isoform 2. 1 PublicationAdd BLAST113

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF110776 mRNA Translation: AAF14859.1
AK290957 mRNA Translation: BAF83646.1
AK292332 mRNA Translation: BAF85021.1
AK298840 mRNA Translation: BAG60968.1
AL590369 Genomic DNA No translation available.
BC001396 mRNA Translation: AAH01396.1
BC033234 mRNA Translation: AAH33234.1
CCDSiCCDS35160.1 [Q9BV86-1]
CCDS69682.1 [Q9BV86-2]
RefSeqiNP_001273725.1, NM_001286796.1 [Q9BV86-1]
NP_001273726.1, NM_001286797.1 [Q9BV86-1]
NP_001273727.1, NM_001286798.1 [Q9BV86-1]
NP_001273728.1, NM_001286799.1 [Q9BV86-1]
NP_001273729.1, NM_001286800.1 [Q9BV86-2]
NP_001273730.1, NM_001286801.1 [Q9BV86-2]
NP_001273731.1, NM_001286802.1
NP_001273732.1, NM_001286803.1
NP_054783.2, NM_014064.3 [Q9BV86-1]
UniGeneiHs.744027

Genome annotation databases

EnsembliENST00000372480; ENSP00000361558; ENSG00000148335 [Q9BV86-1]
ENST00000372481; ENSP00000361559; ENSG00000148335 [Q9BV86-2]
ENST00000372483; ENSP00000361561; ENSG00000148335 [Q9BV86-1]
ENST00000372486; ENSP00000361564; ENSG00000148335 [Q9BV86-1]
ENST00000611055; ENSP00000483489; ENSG00000148335 [Q9BV86-1]
ENST00000613644; ENSP00000478521; ENSG00000148335 [Q9BV86-1]
GeneIDi28989
KEGGihsa:28989
UCSCiuc004byd.3 human [Q9BV86-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF110776 mRNA Translation: AAF14859.1
AK290957 mRNA Translation: BAF83646.1
AK292332 mRNA Translation: BAF85021.1
AK298840 mRNA Translation: BAG60968.1
AL590369 Genomic DNA No translation available.
BC001396 mRNA Translation: AAH01396.1
BC033234 mRNA Translation: AAH33234.1
CCDSiCCDS35160.1 [Q9BV86-1]
CCDS69682.1 [Q9BV86-2]
RefSeqiNP_001273725.1, NM_001286796.1 [Q9BV86-1]
NP_001273726.1, NM_001286797.1 [Q9BV86-1]
NP_001273727.1, NM_001286798.1 [Q9BV86-1]
NP_001273728.1, NM_001286799.1 [Q9BV86-1]
NP_001273729.1, NM_001286800.1 [Q9BV86-2]
NP_001273730.1, NM_001286801.1 [Q9BV86-2]
NP_001273731.1, NM_001286802.1
NP_001273732.1, NM_001286803.1
NP_054783.2, NM_014064.3 [Q9BV86-1]
UniGeneiHs.744027

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EX4X-ray1.75A/B2-222[»]
5CVDX-ray1.30A/B1-223[»]
5CVEX-ray1.50A/B1-223[»]
5E1BX-ray1.65A/B2-223[»]
5E1DX-ray1.45A/B2-223[»]
5E1MX-ray1.75A/B2-223[»]
5E1OX-ray2.00A/B2-223[»]
5E2AX-ray1.75A/B2-223[»]
5E2BX-ray1.95A/B2-223[»]
ProteinModelPortaliQ9BV86
SMRiQ9BV86
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi118810, 25 interactors
DIPiDIP-31241N
IntActiQ9BV86, 7 interactors
STRINGi9606.ENSP00000361558

PTM databases

iPTMnetiQ9BV86
PhosphoSitePlusiQ9BV86

Polymorphism and mutation databases

DMDMi74761281

Proteomic databases

EPDiQ9BV86
MaxQBiQ9BV86
PaxDbiQ9BV86
PeptideAtlasiQ9BV86
PRIDEiQ9BV86
ProteomicsDBi79180
79181 [Q9BV86-2]
TopDownProteomicsiQ9BV86-1 [Q9BV86-1]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000372480; ENSP00000361558; ENSG00000148335 [Q9BV86-1]
ENST00000372481; ENSP00000361559; ENSG00000148335 [Q9BV86-2]
ENST00000372483; ENSP00000361561; ENSG00000148335 [Q9BV86-1]
ENST00000372486; ENSP00000361564; ENSG00000148335 [Q9BV86-1]
ENST00000611055; ENSP00000483489; ENSG00000148335 [Q9BV86-1]
ENST00000613644; ENSP00000478521; ENSG00000148335 [Q9BV86-1]
GeneIDi28989
KEGGihsa:28989
UCSCiuc004byd.3 human [Q9BV86-1]

Organism-specific databases

CTDi28989
EuPathDBiHostDB:ENSG00000148335.14
GeneCardsiNTMT1
H-InvDBiHIX0008452
HGNCiHGNC:23373 NTMT1
HPAiHPA020092
HPA058420
MIMi613560 gene
neXtProtiNX_Q9BV86
OpenTargetsiENSG00000148335
PharmGKBiPA162395788
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3178 Eukaryota
ENOG410XS7T LUCA
GeneTreeiENSGT00390000008371
HOGENOMiHOG000161910
HOVERGENiHBG054992
InParanoidiQ9BV86
KOiK16219
OMAiIYHVYSL
OrthoDBiEOG091G0NA7
PhylomeDBiQ9BV86
TreeFamiTF314174

Enzyme and pathway databases

BioCyciMetaCyc:ENSG00000148335-MONOMER
BRENDAi2.1.1.244 2681

Miscellaneous databases

ChiTaRSiNTMT1 human
EvolutionaryTraceiQ9BV86
GenomeRNAii28989
PROiPR:Q9BV86
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000148335 Expressed in 196 organ(s), highest expression level in left adrenal gland
CleanExiHS_METTL11A
ExpressionAtlasiQ9BV86 baseline and differential
GenevisibleiQ9BV86 HS

Family and domain databases

InterProiView protein in InterPro
IPR008576 MeTrfase_NTM1
IPR029063 SAM-dependent_MTases
PANTHERiPTHR12753 PTHR12753, 1 hit
PfamiView protein in Pfam
PF05891 Methyltransf_PK, 1 hit
PIRSFiPIRSF016958 DUF858_MeTrfase_lik, 1 hit
SUPFAMiSSF53335 SSF53335, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiNTM1A_HUMAN
AccessioniPrimary (citable) accession number: Q9BV86
Secondary accession number(s): A8K4J2
, A8K8G7, Q5SZB9, Q9UI28
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 8, 2005
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 159 of the entry and version 3 of the sequence. See 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, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Human chromosome 9
    Human chromosome 9: entries, gene names and cross-references to MIM
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