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Q672W7

- Q672W7_HELPX

UniProt

Q672W7 - Q672W7_HELPX

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Protein

Peptide deformylase

Gene
def
Organism
Helicobacter pylori (Campylobacter pylori)
Status
Unreviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

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.UniRule annotation

Catalytic activityi

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.UniRule annotationSAAS annotations

Cofactori

Binds 1 Fe2+ ion By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi96 – 961CobaltImported
Metal bindingi96 – 961Iron By similarityUniRule annotation
Metal bindingi138 – 1381Cobalt; via tele nitrogenImported
Metal bindingi138 – 1381Iron By similarityUniRule annotation
Active sitei139 – 1391 By similarityUniRule annotation
Metal bindingi142 – 1421Cobalt; via tele nitrogenImported
Metal bindingi142 – 1421Iron By similarityUniRule annotation

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

HydrolaseUniRule annotationSAAS annotations

Keywords - Biological processi

Protein biosynthesisUniRule annotationSAAS annotations

Keywords - Ligandi

CobaltImported, IronUniRule annotation, Metal-bindingUniRule annotationSAAS annotationsImported

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylaseUniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDFUniRule annotation
Alternative name(s):
Polypeptide deformylase
Gene namesi
Name:defUniRule annotationImported
OrganismiHelicobacter pylori (Campylobacter pylori)Imported
Taxonomic identifieri210 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2EW5X-ray2.20A2-174[»]
2EW6X-ray2.20A2-174[»]
2EW7X-ray2.20A2-174[»]
4E9AX-ray1.66A2-174[»]
4E9BX-ray1.70A2-164[»]
ProteinModelPortaliQ672W7.
SMRiQ672W7. Positions 2-167.

Miscellaneous databases

EvolutionaryTraceiQ672W7.

Family & Domainsi

Sequence similaritiesi

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.

Q672W7-1 [UniParc]FASTAAdd to Basket

« Hide

MALLEIIHYP SKILRTISKE VVSFDAKLHQ QLDDMYETMI ASEGIGLAAI    50
QVGLPLRMLI INLPQEDGVQ HKEDCLEIIN PKFIETGGSM MYKEGCLSVP 100
GFYEEVERFE KVKIEYQNRF AEVKVLEASE LLAVAIQHEI DHLNGVLFVD 150
KLSILKRKKF EKELKELQKK QKHK 174
Length:174
Mass (Da):20,038
Last modified:October 11, 2004 - v1
Checksum:iA10BEAEBE6CC4C85
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY559449 Genomic DNA. Translation: AAT51863.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY559449 Genomic DNA. Translation: AAT51863.1 .

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2EW5 X-ray 2.20 A 2-174 [» ]
2EW6 X-ray 2.20 A 2-174 [» ]
2EW7 X-ray 2.20 A 2-174 [» ]
4E9A X-ray 1.66 A 2-174 [» ]
4E9B X-ray 1.70 A 2-164 [» ]
ProteinModelPortali Q672W7.
SMRi Q672W7. Positions 2-167.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Miscellaneous databases

EvolutionaryTracei Q672W7.

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. "Molecular cloning and characterization of a new peptide deformylase from human pathogenic bacterium Helicobacter pylori."
    Han C., Wang Q., Dong L., Sun H., Peng S., Chen J., Yang Y., Yue J., Shen X., Jiang H.
    Biochem. Biophys. Res. Commun. 319:1292-1298(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: SS1Imported.
  2. "Peptide deformylase is a potential target for anti-Helicobacter pylori drugs: reverse docking, enzymatic assay, and X-ray crystallography validation."
    Cai J., Han C., Hu T., Zhang J., Wu D., Wang F., Liu Y., Ding J., Chen K., Yue J., Shen X., Jiang H.
    Protein Sci. 15:2071-2081(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.20 ANGSTROMS) OF 2-174 IN COMPLEX WITH COBALT.
  3. "Identification of Novel Peptide Deformylase Inhibitors from Natural Products."
    Cui K., Zhu L., Lu W., Huang J.
    Submitted (MAR-2012) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.66 ANGSTROMS) OF 2-174 IN COMPLEX WITH COBALT.

Entry informationi

Entry nameiQ672W7_HELPX
AccessioniPrimary (citable) accession number: Q672W7
Entry historyi
Integrated into UniProtKB/TrEMBL: October 11, 2004
Last sequence update: October 11, 2004
Last modified: June 11, 2014
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

3D-structureImported

External Data

Dasty 3

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