METAP1D Gene
protein-coding GIFtS: 48
GCID: GC02P172865
|
|
methionyl aminopeptidase type 1D (mitochondrial)
| |
Aliases
for METAP1D gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Methionyl Aminopeptidase Type 1D (Mitochondrial)1 2 | | EC 3.4.11.183 8 | | MAP1D1 2 3 | | CDS Of MetAP-3 Within PCR Fragment2 | | Metap1l1 2 | | Methionine Aminopeptidase 1D, Mitochondrial2 | | Methionyl Aminopeptidase Type 1D, Mitochondrial2 3 | | |
Export aliases for METAP1D gene to outside databasesPrevious GC identifer: GC02P164748 |
Summaries
for METAP1D gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for METAP1D:
The N-terminal methionine excision pathway is an essential process in which the N-terminal methionine is removed frommany proteins, thus facilitating subsequent protein modification. In mitochondria, enzymes that catalyze this reactionare celled methionine aminopeptidases (MetAps, or MAPs; EC 3.4.11.18) (Serero et al., 2003 (PubMed14532271)).(supplied by OMIM, Mar 2008)
UniProtKB/Swiss-Prot: AMP1D_HUMAN, Q6UB28Function: Removes the N-terminal methionine from nascent proteins (By similarity). May play a role in colontumorigenesis
|
Genomic Views
for METAP1D gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000002.11 NC_018913.1 NT_005403.17
Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for METAP1D
Other transcription factors
Search SABiosciences Chromatin IP Primers for METAP1D
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat METAP1D |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 2q31.1 Ensembl cytogenetic band: 2q31.1 HGNC cytogenetic band: 2q31.1METAP1D Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 2 GeneLoc Exon Structure GeneLoc location for GC02P172865: view genomic region
(about GC identifiers)
Start:
|
172,864,490 bp from pter |
End:
|
172,947,158 bp from pter |
Size:
|
82,669 bases |
Orientation:
|
plus strand |
|
Proteins
for METAP1D gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: AMP1D_HUMAN, Q6UB28 (See
protein sequence)Recommended Name: Methionine aminopeptidase 1D, mitochondrial precursor Size: 335 amino acids; 37088 Da
Cofactor: Binds 2 cobalt ions per subunit. The true nature of the physiological cofactor is under debate. The enzyme isalso active with zinc, manganese or divalent iron ions (By similarity)
Subcellular location: Mitochondrion
Caution: It is uncertain whether Met-1 or a Met upstream of this sequence is the initiator
Sequence caution: Sequence=AAY55948.1; Type=Erroneous initiation;
Secondary accessions: Q1WNX3Explore the universe of human proteins at neXtProt for METAP1D: NX_Q6UB28
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6UB28
4 DME Specific Peptides for METAP1D (Q6UB28)
METAP1D Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_954697.1
ENSEMBL proteins: ENSP00000315152
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table
METAP1D for ontologies About GeneDecksing
METAP1D Antibody Products:
Assay Products for METAP1D: |
Protein
Domains /
Families
for METAP1D gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
METAP1D for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6UB28ProtoNet protein and cluster: Q6UB28 2 Blocks protein families: IPB001714 Methionine aminopeptidase-1 signature IPB002467 Methionine aminopeptidase
UniProtKB/Swiss-Prot: AMP1D_HUMAN, Q6UB28Similarity: Belongs to the peptidase M24A family |
Function
for METAP1D gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: AMP1D_HUMAN, Q6UB28Function: Removes the N-terminal methionine from nascent proteins (By similarity). May play a role in colontumorigenesisCatalytic activity: Release of N-terminal amino acids, preferentially methionine, from peptides and arylamidesBiophysicochemical properties: Kinetic parameters: KM=573 uM for Met-pro-p-nitroanilide (at pH 8); pH dependence:Optimum pH is 7.5-8.0;Enzyme Number (IUBMB): EC 3.4.11.181 2
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for METAP1D
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Synthesis Service for METAP1D | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat METAP1D |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for METAP1D |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table
METAP1D for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for METAP1D:
|
Pathways & Interactions
for METAP1D gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for METAP1D
STRING Interaction
Network Preview (showing 4 interactants - click image to see more details)
4 Interacting proteins for METAP1D (ENSP000003151524) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table
METAP1D for ontologies About GeneDecksing
|
Drugs & Compounds
for METAP1D gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for METAP1D
Search CenterWatch for drugs/clinical trials and news about METAP1D / AMP1D
|
Transcripts
for METAP1D gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for METAP1D gene: NM_199227.1 Unigene Cluster for METAP1D: Methionyl aminopeptidase type 1D (mitochondrial) Hs.298250 [show with all ESTs]Unigene Representative Sequence: AK0957428 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000315796(uc002uhk.3 uc010zdw.2) ENST00000493035 ENST00000493742
ENST00000491440 ENST00000488581 ENST00000392582 ENST00000468537 ENST00000472770
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for METAP1D (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for METAP1D
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: METAP1D (NM_199227) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for METAP1D | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat METAP1D |
Additional cDNA sequence: AK095742.1 AY374142.1 BC029123.1 BC113644.1 BC143913.1 DQ005576.1 7 DOTS entries: DT.99935544 DT.75115530 DT.425367 DT.97811824 DT.91800477 DT.95219382 DT.99934620 24/62 AceView cDNA sequences (see all 62): BU623229 AA887324 BM982111 AI362530 AI049781 AI863797 AI936541 NM_199227 BU632792 AA442892 BQ445926 AY374142 BQ718186 BX106042 BU930097 BQ955379 AA022781 BQ002294 AI370447 CB164698 BG258429 BF438491 AA877928 AW304423
GeneLoc Exon Structure
4 Alternative Splicing Database (ASD) splice patterns (SP) for METAP1D About this scheme
| ExUns: | 1a | · | 1b | ^ | 2a | · | 2b | ^ | 3a | · | 3b | ^ | 4 | ^ | 5 | ^ | 6a | · | 6b | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | · | 10c |
|---|
|
| SP1: | | | | | | | | | | | - | | | | | | - | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | - | | - | | | | - | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for METAP1D
|
Expression
for METAP1D gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| METAP1D expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AGGCCTGAGG
About this image
See METAP1D Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for METAP1D
SOURCE GeneReport for Unigene cluster: Hs.298250
UniProtKB/Swiss-Prot: AMP1D_HUMAN, Q6UB28Tissue specificity: Overexpressed in colon cancer cell lines and colon tumors as compared to normal tissues (at proteinlevel)
SABiosciences Custom PCR Arrays for METAP1D
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for METAP1D
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat METAP1D | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat METAP1D | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat METAP1D | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for METAP1D |
Orthologs
for METAP1D gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the last universal common ancestor (LUCA).
Orthologs for METAP1D gene from 7/34 species (see all 34) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
METAP1D1 |
methionyl aminopeptidase type 1D (mitochondrial) |
81.14(n)
80.54(a) |
|
424150 XM_421997.3 XP_421997.2 |
lizard
(Anolis carolinensis) |
Reptilia |
METAP1D6 |
-- |
76(a) |
1 ↔ 1 |
GL343353.1(471841-496225) |
zebrafish
(Danio rerio) |
Actinopterygii |
metap1d1 |
methionyl aminopeptidase type 1D (mitochondrial) |
65.47(n)
66.97(a) |
|
554090 NM_001024392.1 NP_001019563.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
CG51881 |
CG5188 |
55.2(n)
51.97(a) |
|
34428 NM_135557.3 NP_609401.2 |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
MAP1D1 |
methionine aminopeptidase 1D |
54.95(n)
52.9(a) |
|
829858 NM_119867.2 NP_568014.1 |
rice
(Oryza sativa) |
Liliopsida |
Os.107272 |
Oryza sativa (japonica cultivar-group) cDNA clone0 more |
73.28(n) |
|
AK066289.1 |
E. coli
(Escherichia coli) |
Gamma proteobacteria |
map6 |
methionine aminopeptidase |
36(a) |
possible ortholog |
Chromosome(188712-189506) |
ENSEMBL Gene Tree for METAP1D (if available)
TreeFam Gene Tree for METAP1D (if available) |
Paralogs
for METAP1D gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for METAP1D gene
- METAP12
2 SIMAP similar genes for METAP1D using alignment to 1 protein entry: AMP1D_HUMAN:DKFZp781C0419 METAP1
METAP1D for paralogs About GeneDecksing
|
Genomic Variants
for METAP1D gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 2 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for METAP1D (172864490 - 172947158 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for METAP1D: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing METAP1D |
|
Disorders
/ Diseases
for METAP1D gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
METAP1D for disorders About GeneDecksing
OMIM gene information: 610267
OMIM disorders: --
5  diseases for METAP1D: About MalaCardscolon cancer pneumonia tuberculosis malaria
mycobacterium tuberculosis
Export disorders for METAP1D gene to outside databases
|
Publications
for METAP1D gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for METAP1D gene integrated from 9 sources:
(articles sorted by number of sources associating them with METAP1D) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- An unusual peptide deformylase features in the human mitochondrial N- terminal methionine excision pathway. (PubMed id 14532271)1, 2, 3, 9 Serero A.... Meinnel T. (2003)
- MAP1D, a novel methionine aminopeptidase family member is overexpressed in colon cancer. (PubMed id 16568094)1, 2, 3 Leszczyniecka M.... Phillips P.E. (2006)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- Genetic variants in nuclear-encoded mitochondrial gen es influence AIDS progression. (PubMed id 20877624)1 Hendrickson S.L....O'Brien S.J. (2010)
- Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1 Bailey S.D....Anand S. (2010)
- Gene-centric association signals for lipids and apoli poproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (2009)
- Kinetic and mutational studies of the number of interacting divalent cations required by bacterial and human methionine aminopeptidases. (PubMed id 17929833)2 Hu X.V.... Liu J.O. (2007)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for METAP1D gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing METAP1D gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing METAP1D gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing METAP1D gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
|
About This Section
| Patent Information for METAP1D gene:
Search GeneIP for patents involving METAP1D
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for METAP1D gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| |
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| |  |  |  |  | | | | |
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 | | | METAP1D Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for METAP1D |
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