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Protein

Protein-L-isoaspartate(D-aspartate) O-methyltransferase

Gene

PCMT1

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

Functioni

Catalyzes the methyl esterification of L-isoaspartyl and D-aspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and/or degradation of damaged proteins. Acts on EIF4EBP2, microtubule-associated protein 2, calreticulin, clathrin light chains a and b, Ubiquitin carboxyl-terminal hydrolase isozyme L1, phosphatidylethanolamine-binding protein 1, stathmin, beta-synuclein and alpha-synuclein.By similarity

Catalytic activityi

S-adenosyl-L-methionine + protein L-isoaspartate = S-adenosyl-L-homocysteine + protein L-isoaspartate alpha-methyl ester.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei601

GO - Molecular functioni

  • cadherin binding involved in cell-cell adhesion Source: BHF-UCL
  • protein-L-isoaspartate (D-aspartate) O-methyltransferase activity Source: UniProtKB

GO - Biological processi

  • protein methylation Source: ProtInc
  • protein repair Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciMetaCyc:HS04385-MONOMER.
ZFISH:HS04385-MONOMER.
BRENDAi2.1.1.77. 2681.
ReactomeiR-HSA-5676934. Protein repair.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein-L-isoaspartate(D-aspartate) O-methyltransferase (EC:2.1.1.77)
Short name:
PIMT
Alternative name(s):
L-isoaspartyl protein carboxyl methyltransferase
Protein L-isoaspartyl/D-aspartyl methyltransferase
Protein-beta-aspartate methyltransferase
Gene namesi
Name:PCMT1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:8728. PCMT1.

Subcellular locationi

GO - Cellular componenti

  • cell-cell adherens junction Source: BHF-UCL
  • cytoplasm Source: HPA
  • cytosol Source: Reactome
  • extracellular exosome Source: UniProtKB
  • extracellular vesicle Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

DisGeNETi5110.

Chemistry databases

ChEMBLiCHEMBL4240.

Polymorphism and mutation databases

BioMutaiPCMT1.
DMDMi317373537.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001118752 – 227Protein-L-isoaspartate(D-aspartate) O-methyltransferaseAdd BLAST226

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanine1 Publication1
Disulfide bondi43 ↔ 95By similarity

Keywords - PTMi

Acetylation, Disulfide bond

Proteomic databases

EPDiP22061.
MaxQBiP22061.
PaxDbiP22061.
PeptideAtlasiP22061.
PRIDEiP22061.

2D gel databases

OGPiP22061.
REPRODUCTION-2DPAGEIPI00411680.
UCD-2DPAGEP22061.

PTM databases

iPTMnetiP22061.
PhosphoSitePlusiP22061.

Expressioni

Gene expression databases

BgeeiENSG00000120265.
ExpressionAtlasiP22061. baseline and differential.
GenevisibleiP22061. HS.

Organism-specific databases

HPAiHPA003239.

Interactioni

Subunit structurei

Monomer.

Binary interactionsi

WithEntry#Exp.IntActNotes
AIMP2Q131553EBI-353343,EBI-745226
RPIAP492473EBI-353343,EBI-744831

GO - Molecular functioni

  • cadherin binding involved in cell-cell adhesion Source: BHF-UCL

Protein-protein interaction databases

BioGridi111141. 101 interactors.
IntActiP22061. 20 interactors.
MINTiMINT-234244.
STRINGi9606.ENSP00000356348.

Chemistry databases

BindingDBiP22061.

Structurei

Secondary structure

1227
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi10 – 19Combined sources10
Helixi26 – 33Combined sources8
Helixi37 – 39Combined sources3
Beta strandi47 – 49Combined sources3
Beta strandi51 – 54Combined sources4
Beta strandi57 – 59Combined sources3
Helixi62 – 71Combined sources10
Turni72 – 75Combined sources4
Beta strandi81 – 85Combined sources5
Helixi91 – 100Combined sources10
Turni101 – 103Combined sources3
Beta strandi105 – 111Combined sources7
Helixi113 – 126Combined sources14
Helixi129 – 132Combined sources4
Beta strandi134 – 141Combined sources8
Helixi143 – 145Combined sources3
Helixi148 – 150Combined sources3
Beta strandi153 – 158Combined sources6
Beta strandi160 – 164Combined sources5
Helixi167 – 171Combined sources5
Beta strandi173 – 184Combined sources12
Beta strandi190 – 197Combined sources8
Beta strandi203 – 211Combined sources9
Helixi219 – 222Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1I1NX-ray1.50A2-227[»]
1KR5X-ray2.10A2-227[»]
ProteinModelPortaliP22061.
SMRiP22061.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP22061.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1661. Eukaryota.
COG2518. LUCA.
HOVERGENiHBG004483.
InParanoidiP22061.
KOiK00573.
PhylomeDBiP22061.
TreeFamiTF314431.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR000682. PCMT.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PANTHERiPTHR11579. PTHR11579. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00080. pimt. 1 hit.
PROSITEiPS01279. PCMT. 1 hit.
[Graphical view]

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

Isoform 1 (identifier: P22061-1) [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
MAWKSGGASH SELIHNLRKN GIIKTDKVFE VMLATDRSHY AKCNPYMDSP
60 70 80 90 100
QSIGFQATIS APHMHAYALE LLFDQLHEGA KALDVGSGSG ILTACFARMV
110 120 130 140 150
GCTGKVIGID HIKELVDDSV NNVRKDDPTL LSSGRVQLVV GDGRMGYAEE
160 170 180 190 200
APYDAIHVGA AAPVVPQALI DQLKPGGRLI LPVGPAGGNQ MLEQYDKLQD
210 220
GSIKMKPLMG VIYVPLTDKE KQWSRWK
Length:227
Mass (Da):24,636
Last modified:January 11, 2011 - v4
Checksum:i4EB1122379C8040A
GO
Isoform 2 (identifier: P22061-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     226-227: WK → DEL

Show »
Length:228
Mass (Da):24,679
Checksum:i69E688C22379C804
GO

Sequence cautioni

The sequence EAW47786 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti19K → G AA sequence (PubMed:3167043).Curated1
Sequence conflicti23I → L AA sequence (PubMed:2684970).Curated1
Sequence conflicti60S → A AA sequence (PubMed:3167043).Curated1
Sequence conflicti102C → Q AA sequence (PubMed:2684970).Curated1
Sequence conflicti168A → P AA sequence (PubMed:3167043).Curated1
Sequence conflicti206K → R in AAA90933 (PubMed:1339271).Curated1

Polymorphismi

The allele frequencies for the polymorphism at codon 120 differ between ethnic groups; in the Caucasian population Ile-120 is present at a frequency of 0.45, while it is found at a frequency of 0.88 and 0.81 in the Asian and the African populations respectively. Val-120 is found at a frequency of 0.55 in the Caucasians, 0.12 and 0.19 in the Asian and African populations respectively. The Ile-120 variant has higher specific activity and thermostability than the Val-120 variant. The Val-120 variant has a higher affinity for protein substrates.

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_006173120V → I.Combined sources5 PublicationsCorresponds to variant rs4816dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_004716226 – 227WK → DEL in isoform 2. 4 Publications2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M93008 mRNA. Translation: AAA90934.1.
M93009 mRNA. Translation: AAA90933.1.
D25545 mRNA. Translation: BAA05028.1.
D25546 mRNA. Translation: BAA05029.1.
D25547 mRNA. Translation: BAA05030.1.
D13892 mRNA. Translation: BAA02991.1.
AK289724 mRNA. Translation: BAF82413.1.
AL355312 Genomic DNA. No translation available.
CH471051 Genomic DNA. Translation: EAW47786.1. Sequence problems.
BC007501 mRNA. Translation: AAH07501.1.
BC008748 mRNA. Translation: AAH08748.1.
U49740 Genomic DNA. Translation: AAB38386.1.
S73902 Genomic DNA. Translation: AAC60639.2.
S73903 Genomic DNA. Translation: AAC60640.1.
S73905 Genomic DNA. Translation: AAC60641.2.
PIRiA34489.
JH0624.
RefSeqiNP_001238978.1. NM_001252049.1.
NP_001238982.1. NM_001252053.1.
NP_005380.2. NM_005389.2.
UniGeneiHs.279257.

Genome annotation databases

EnsembliENST00000367380; ENSP00000356350; ENSG00000120265.
GeneIDi5110.
KEGGihsa:5110.
UCSCiuc011eeg.3. human. [P22061-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M93008 mRNA. Translation: AAA90934.1.
M93009 mRNA. Translation: AAA90933.1.
D25545 mRNA. Translation: BAA05028.1.
D25546 mRNA. Translation: BAA05029.1.
D25547 mRNA. Translation: BAA05030.1.
D13892 mRNA. Translation: BAA02991.1.
AK289724 mRNA. Translation: BAF82413.1.
AL355312 Genomic DNA. No translation available.
CH471051 Genomic DNA. Translation: EAW47786.1. Sequence problems.
BC007501 mRNA. Translation: AAH07501.1.
BC008748 mRNA. Translation: AAH08748.1.
U49740 Genomic DNA. Translation: AAB38386.1.
S73902 Genomic DNA. Translation: AAC60639.2.
S73903 Genomic DNA. Translation: AAC60640.1.
S73905 Genomic DNA. Translation: AAC60641.2.
PIRiA34489.
JH0624.
RefSeqiNP_001238978.1. NM_001252049.1.
NP_001238982.1. NM_001252053.1.
NP_005380.2. NM_005389.2.
UniGeneiHs.279257.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1I1NX-ray1.50A2-227[»]
1KR5X-ray2.10A2-227[»]
ProteinModelPortaliP22061.
SMRiP22061.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111141. 101 interactors.
IntActiP22061. 20 interactors.
MINTiMINT-234244.
STRINGi9606.ENSP00000356348.

Chemistry databases

BindingDBiP22061.
ChEMBLiCHEMBL4240.

PTM databases

iPTMnetiP22061.
PhosphoSitePlusiP22061.

Polymorphism and mutation databases

BioMutaiPCMT1.
DMDMi317373537.

2D gel databases

OGPiP22061.
REPRODUCTION-2DPAGEIPI00411680.
UCD-2DPAGEP22061.

Proteomic databases

EPDiP22061.
MaxQBiP22061.
PaxDbiP22061.
PeptideAtlasiP22061.
PRIDEiP22061.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000367380; ENSP00000356350; ENSG00000120265.
GeneIDi5110.
KEGGihsa:5110.
UCSCiuc011eeg.3. human. [P22061-1]

Organism-specific databases

CTDi5110.
DisGeNETi5110.
GeneCardsiPCMT1.
HGNCiHGNC:8728. PCMT1.
HPAiHPA003239.
MIMi176851. gene.
neXtProtiNX_P22061.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1661. Eukaryota.
COG2518. LUCA.
HOVERGENiHBG004483.
InParanoidiP22061.
KOiK00573.
PhylomeDBiP22061.
TreeFamiTF314431.

Enzyme and pathway databases

BioCyciMetaCyc:HS04385-MONOMER.
ZFISH:HS04385-MONOMER.
BRENDAi2.1.1.77. 2681.
ReactomeiR-HSA-5676934. Protein repair.

Miscellaneous databases

EvolutionaryTraceiP22061.
GeneWikiiPCMT1.
GenomeRNAii5110.
PROiP22061.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000120265.
ExpressionAtlasiP22061. baseline and differential.
GenevisibleiP22061. HS.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR000682. PCMT.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PANTHERiPTHR11579. PTHR11579. 1 hit.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00080. pimt. 1 hit.
PROSITEiPS01279. PCMT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPIMT_HUMAN
AccessioniPrimary (citable) accession number: P22061
Secondary accession number(s): A8K109
, J3KP72, Q14661, Q16556, Q5VYC1, Q5VYC2, Q93061, Q96II9, Q99625, Q9BQV7, Q9BQV8, Q9NP03
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1991
Last sequence update: January 11, 2011
Last modified: November 2, 2016
This is version 179 of the entry and version 4 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: 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.