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C4K6Y0

- DEF_HAMD5

UniProt

C4K6Y0 - DEF_HAMD5

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Protein

Peptide deformylase

Gene

def

Organism
Hamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
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.UniRule annotation

Catalytic activityi

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

Cofactori

Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi91 – 911IronUniRule annotation
Metal bindingi133 – 1331IronUniRule annotation
Active sitei134 – 1341UniRule annotation
Metal bindingi137 – 1371IronUniRule 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

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciHDEF572265:GJAB-1736-MONOMER.

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 annotation
Ordered Locus Names:HDEF_1720
OrganismiHamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
Taxonomic identifieri572265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeaphid secondary symbiontsCandidatus Hamiltonella
ProteomesiUP000002334: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 171171Peptide deformylasePRO_1000203604Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi572265.HDEF_1720.

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiPNQYAEV.
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.

C4K6Y0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSILQILHFP DDRLRKIASP VKKMDDQIRQ IADDMLETMY QAEGIGLAAT
60 70 80 90 100
QVNIHQRIIV IDVSEDRHQP LILINPELLE KSGETGIEEG CLSIPGEKAF
110 120 130 140 150
IPRAKEITIQ ALNREGRSFR LSADDLLAIC IQHEMDHLIG KLFVDYLSPF
160 170
KRQRIQKKME KLQKINEKKD K
Length:171
Mass (Da):19,668
Last modified:July 7, 2009 - v1
Checksum:i2895AAEC85926923
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001277 Genomic DNA. Translation: ACQ68323.1.
RefSeqiWP_015874087.1. NC_012751.1.
YP_002924471.1. NC_012751.1.

Genome annotation databases

EnsemblBacteriaiACQ68323; ACQ68323; HDEF_1720.
GeneIDi7951317.
KEGGihde:HDEF_1720.
PATRICi31974899. VBICanHam112931_1710.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001277 Genomic DNA. Translation: ACQ68323.1 .
RefSeqi WP_015874087.1. NC_012751.1.
YP_002924471.1. NC_012751.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 572265.HDEF_1720.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACQ68323 ; ACQ68323 ; HDEF_1720 .
GeneIDi 7951317.
KEGGi hde:HDEF_1720.
PATRICi 31974899. VBICanHam112931_1710.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci HDEF572265:GJAB-1736-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. "Hamiltonella defensa, genome evolution of protective bacterial endosymbiont from pathogenic ancestors."
    Degnan P.H., Yu Y., Sisneros N., Wing R.A., Moran N.A.
    Proc. Natl. Acad. Sci. U.S.A. 106:9063-9068(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 5AT.

Entry informationi

Entry nameiDEF_HAMD5
AccessioniPrimary (citable) accession number: C4K6Y0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 7, 2009
Last modified: October 1, 2014
This is version 34 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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3