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Protein

Aminopeptidase YpdE

Gene

ypdE

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Has a broad aminopeptidase activity on non-blocked peptides by progressively cleaving amino acids off the peptide substrate. Aminopeptidase activity stops at the residue before the first proline in the peptide. Can not cleave when proline is the first N-terminal residue.1 Publication

Cofactori

Co2+Curated1 Publication, Ni2+Curated1 Publication, Mn2+Curated1 Publication, Cu2+Curated1 PublicationNote: Binds 2 divalent metal cations per subunit. Can use cobalt, and to a lesser extent, nickel, manganese or copper.Curated1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi62 – 621Divalent metal cation 1By similarity
Metal bindingi166 – 1661Divalent metal cation 1By similarity
Metal bindingi166 – 1661Divalent metal cation 2By similarity
Active sitei198 – 1981Proton acceptorBy similarity
Metal bindingi199 – 1991Divalent metal cation 2By similarity
Metal bindingi221 – 2211Divalent metal cation 1By similarity
Metal bindingi308 – 3081Divalent metal cation 2By similarity

GO - Molecular functioni

  • aminopeptidase activity Source: EcoliWiki
  • metal ion binding Source: UniProtKB-KW
  • metallopeptidase activity Source: EcoliWiki
Complete GO annotation...

Keywords - Molecular functioni

Aminopeptidase, Hydrolase, Metalloprotease, Protease

Keywords - Ligandi

Cobalt, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7247-MONOMER.
ECOL316407:JW2381-MONOMER.
MetaCyc:G7247-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Aminopeptidase YpdE (EC:3.4.11.-)
Gene namesi
Name:ypdE
Ordered Locus Names:b2384, JW2381
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14152. ypdE.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 345345Aminopeptidase YpdEPRO_0000071659Add
BLAST

Proteomic databases

PaxDbiP77585.
PRIDEiP77585.

Interactioni

Protein-protein interaction databases

BioGridi4260561. 10 interactions.
DIPiDIP-48263N.
IntActiP77585. 8 interactions.
STRINGi511145.b2384.

Structurei

3D structure databases

ProteinModelPortaliP77585.
SMRiP77585. Positions 1-345.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the peptidase M42 family.Curated

Phylogenomic databases

eggNOGiENOG4105CN9. Bacteria.
COG1363. LUCA.
HOGENOMiHOG000291973.
InParanoidiP77585.
OMAiRILQHAT.
OrthoDBiEOG6V4GDH.
PhylomeDBiP77585.

Family and domain databases

Gene3Di2.40.30.40. 1 hit.
InterProiIPR008007. Peptidase_M42.
IPR023367. Peptidase_M42_dom2.
[Graphical view]
PfamiPF05343. Peptidase_M42. 1 hit.
[Graphical view]
PIRSFiPIRSF001123. PepA_GA. 1 hit.

Sequencei

Sequence statusi: Complete.

P77585-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDLSLLKALS EADAIASSEQ EVRQILLEEA DRLQKEVRFD GLGSVLIRLN
60 70 80 90 100
ESTGPKVMIC AHMDEVGFMV RSISREGAID VLPVGNVRMA ARQLQPVRIT
110 120 130 140 150
TREECKIPGL LDGDRQGNDV SAMRVDIGAR SYDEVMQAGI RPGDRVTFDT
160 170 180 190 200
TFQVLPHQRV MGKAFDDRLG CYLLVTLLRE LHDAELPAEV WLVASSSEEV
210 220 230 240 250
GLRGGQTATR AVSPDVAIVL DTACWAKNFD YGAANHRQIG NGPMLVLSDK
260 270 280 290 300
SLIAPPKLTA WVETVAAEIG VPLQADMFSN GGTDGGAVHL TGTGVPTVVM
310 320 330 340
GPATRHGHCA ASIADCRDIL QMQQLLSALI QRLTRETVVQ LTDFR
Length:345
Mass (Da):37,409
Last modified:February 1, 1997 - v1
Checksum:iFB2D88A5C11590A1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75443.1.
AP009048 Genomic DNA. Translation: BAA16254.1.
PIRiE65012.
RefSeqiNP_416885.1. NC_000913.3.
WP_000366028.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75443; AAC75443; b2384.
BAA16254; BAA16254; BAA16254.
GeneIDi946848.
KEGGiecj:JW2381.
eco:b2384.
PATRICi32120147. VBIEscCol129921_2482.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75443.1.
AP009048 Genomic DNA. Translation: BAA16254.1.
PIRiE65012.
RefSeqiNP_416885.1. NC_000913.3.
WP_000366028.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP77585.
SMRiP77585. Positions 1-345.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260561. 10 interactions.
DIPiDIP-48263N.
IntActiP77585. 8 interactions.
STRINGi511145.b2384.

Proteomic databases

PaxDbiP77585.
PRIDEiP77585.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75443; AAC75443; b2384.
BAA16254; BAA16254; BAA16254.
GeneIDi946848.
KEGGiecj:JW2381.
eco:b2384.
PATRICi32120147. VBIEscCol129921_2482.

Organism-specific databases

EchoBASEiEB3904.
EcoGeneiEG14152. ypdE.

Phylogenomic databases

eggNOGiENOG4105CN9. Bacteria.
COG1363. LUCA.
HOGENOMiHOG000291973.
InParanoidiP77585.
OMAiRILQHAT.
OrthoDBiEOG6V4GDH.
PhylomeDBiP77585.

Enzyme and pathway databases

BioCyciEcoCyc:G7247-MONOMER.
ECOL316407:JW2381-MONOMER.
MetaCyc:G7247-MONOMER.

Miscellaneous databases

PROiP77585.

Family and domain databases

Gene3Di2.40.30.40. 1 hit.
InterProiIPR008007. Peptidase_M42.
IPR023367. Peptidase_M42_dom2.
[Graphical view]
PfamiPF05343. Peptidase_M42. 1 hit.
[Graphical view]
PIRSFiPIRSF001123. PepA_GA. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Construction of a contiguous 874-kb sequence of the Escherichia coli-K12 genome corresponding to 50.0-68.8 min on the linkage map and analysis of its sequence features."
    Yamamoto Y., Aiba H., Baba T., Hayashi K., Inada T., Isono K., Itoh T., Kimura S., Kitagawa M., Makino K., Miki T., Mitsuhashi N., Mizobuchi K., Mori H., Nakade S., Nakamura Y., Nashimoto H., Oshima T.
    , Oyama S., Saito N., Sampei G., Satoh Y., Sivasundaram S., Tagami H., Takahashi H., Takeda J., Takemoto K., Uehara K., Wada C., Yamagata S., Horiuchi T.
    DNA Res. 4:91-113(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. "Characterization of two new aminopeptidases in Escherichia coli."
    Zheng Y., Roberts R.J., Kasif S., Guan C.
    J. Bacteriol. 187:3671-3677(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS AN AMINOPEPTIDASE, CATALYTIC ACTIVITY, SUBSTRATE SPECIFICITY, COFACTOR.

Entry informationi

Entry nameiYPDE_ECOLI
AccessioniPrimary (citable) accession number: P77585
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 27, 2002
Last sequence update: February 1, 1997
Last modified: January 20, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. 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.