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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: 2 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.UniRule annotation

Catalytic activityi

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

Cofactori

Note: Binds 1 Fe(2+) ion.UniRule annotation

Sites

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

Keywords - Biological processi

Protein biosynthesisUniRule annotationSAAS annotation

Keywords - Ligandi

IronUniRule annotation, Metal-bindingUniRule annotationSAAS annotation

Names & Taxonomyi

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

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ672W7.

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

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

        10         20         30         40         50
MALLEIIHYP SKILRTISKE VVSFDAKLHQ QLDDMYETMI ASEGIGLAAI
60 70 80 90 100
QVGLPLRMLI INLPQEDGVQ HKEDCLEIIN PKFIETGGSM MYKEGCLSVP
110 120 130 140 150
GFYEEVERFE KVKIEYQNRF AEVKVLEASE LLAVAIQHEI DHLNGVLFVD
160 170
KLSILKRKKF EKELKELQKK QKHK
Length:174
Mass (Da):20,038
Last modified:October 11, 2004 - v1
Checksum:iA10BEAEBE6CC4C85
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY559449 Genomic DNA. Translation: AAT51863.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY559449 Genomic DNA. Translation: AAT51863.1 .

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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.
  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.

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: November 26, 2014
This is version 49 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