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P56419

- DEF_HELPY

UniProt

P56419 - DEF_HELPY

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Protein

Peptide deformylase

Gene

def

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi

Functioni

Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).By similarity

Catalytic activityi

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.

Cofactori

Fe2+By similarityNote: Binds 1 Fe(2+) ion.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi96 – 961IronBy similarity
Metal bindingi138 – 1381IronBy similarity
Active sitei139 – 1391By similarity
Metal bindingi142 – 1421IronBy similarity

GO - Molecular functioni

  1. iron ion binding Source: InterPro
  2. peptide deformylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. translation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciHPY:HP0793-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase (EC:3.5.1.88)
Short name:
PDF
Alternative name(s):
Polypeptide deformylase
Gene namesi
Name:def
Ordered Locus Names:HP_0793
OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Taxonomic identifieri85962 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000000429: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 174174Peptide deformylasePRO_0000082790Add
BLAST

Proteomic databases

PRIDEiP56419.

Interactioni

Protein-protein interaction databases

DIPiDIP-3266N.
IntActiP56419. 5 interactions.
MINTiMINT-165640.
STRINGi85962.HP0793.

Structurei

3D structure databases

ProteinModelPortaliP56419.
SMRiP56419. Positions 2-167.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.Curated

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiTHRAWYA.
OrthoDBiEOG664CMF.

Family and domain databases

Gene3Di3.90.45.10. 1 hit.
HAMAPiMF_00163. Pep_deformylase.
InterProiIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERiPTHR10458. PTHR10458. 1 hit.
PfamiPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFiPIRSF004749. Pep_def. 1 hit.
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

Sequencei

Sequence statusi: Complete.

P56419-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MALLEIIHYP SKILRTISKE VVSFDSKLHQ QLDDMHETMI ASEGIGLAAI
60 70 80 90 100
QVGLPLRMLI INLPQEDGVQ HKEDCLEIIN PKFIETGGSM MYREGCLSVP
110 120 130 140 150
GFYEEVERFE KVKIEYQNRF AEVKVLEASE LLAVAIQHEI DHLNGVLFVD
160 170
KLSILKRKKF EKELKELQKK QKHE
Length:174
Mass (Da):20,057
Last modified:July 15, 1998 - v1
Checksum:i375525F45E5CC774
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000511 Genomic DNA. Translation: AAD07841.1.
PIRiA64619.
RefSeqiNP_207586.1. NC_000915.1.
YP_006934707.1. NC_018939.1.

Genome annotation databases

EnsemblBacteriaiAAD07841; AAD07841; HP_0793.
GeneIDi13869976.
899348.
KEGGiheo:C694_04065.
hpy:HP0793.
PATRICi20592873. VBIHelPyl33062_0825.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000511 Genomic DNA. Translation: AAD07841.1 .
PIRi A64619.
RefSeqi NP_207586.1. NC_000915.1.
YP_006934707.1. NC_018939.1.

3D structure databases

ProteinModelPortali P56419.
SMRi P56419. Positions 2-167.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-3266N.
IntActi P56419. 5 interactions.
MINTi MINT-165640.
STRINGi 85962.HP0793.

Proteomic databases

PRIDEi P56419.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAD07841 ; AAD07841 ; HP_0793 .
GeneIDi 13869976.
899348.
KEGGi heo:C694_04065.
hpy:HP0793.
PATRICi 20592873. VBIHelPyl33062_0825.

Phylogenomic databases

eggNOGi COG0242.
KOi K01462.
OMAi THRAWYA.
OrthoDBi EOG664CMF.

Enzyme and pathway databases

BioCyci HPY:HP0793-MONOMER.

Family and domain databases

Gene3Di 3.90.45.10. 1 hit.
HAMAPi MF_00163. Pep_deformylase.
InterProi IPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view ]
PANTHERi PTHR10458. PTHR10458. 1 hit.
Pfami PF01327. Pep_deformylase. 1 hit.
[Graphical view ]
PIRSFi PIRSF004749. Pep_def. 1 hit.
PRINTSi PR01576. PDEFORMYLASE.
SUPFAMi SSF56420. SSF56420. 1 hit.
TIGRFAMsi TIGR00079. pept_deformyl. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700392 / 26695.

Entry informationi

Entry nameiDEF_HELPY
AccessioniPrimary (citable) accession number: P56419
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: July 15, 1998
Last modified: November 26, 2014
This is version 92 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. Helicobacter pylori
    Helicobacter pylori (strain 26695): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3