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Q13F18

- DEF_RHOPS

UniProt

Q13F18 - DEF_RHOPS

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Protein

Peptide deformylase

Gene
def, RPD_0081
Organism
Rhodopseudomonas palustris (strain BisB5)
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.UniRule annotation

Catalytic activityi

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

Cofactori

Binds 1 Fe2+ ion By similarity.UniRule annotation

Sites

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

BioCyciRPAL316057:GHDC-82-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:RPD_0081
OrganismiRhodopseudomonas palustris (strain BisB5)
Taxonomic identifieri316057 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
ProteomesiUP000001818: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 175175Peptide deformylaseUniRule annotationPRO_0000301089Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi316057.RPD_0081.

Structurei

3D structure databases

ProteinModelPortaliQ13F18.
SMRiQ13F18. Positions 2-171.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiWATCAQH.
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.

Q13F18-1 [UniParc]FASTAAdd to Basket

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MALREIIILP DKRLREISKP VAEVTPEIRK LADDMFESMY DAPGIGLAAI    50
QIAEPVRLIT MDIVRKEGNG KSDPRAFINP EIVGASAEMN VYEEGCLSIP 100
EYYADVERPA VVRIRYTDLD GNVKEEDADG LFATCIQHEI DHLDGVLFVD 150
HLSKLKRAMV VRKFEKAAKR GIKYV 175
Length:175
Mass (Da):19,687
Last modified:October 31, 2006 - v1
Checksum:i98C170300FE8832C
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000283 Genomic DNA. Translation: ABE37321.1.
RefSeqiWP_011500514.1. NC_007958.1.
YP_567222.1. NC_007958.1.

Genome annotation databases

EnsemblBacteriaiABE37321; ABE37321; RPD_0081.
GeneIDi4020536.
KEGGirpd:RPD_0081.
PATRICi23274961. VBIRhoPal120395_0079.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000283 Genomic DNA. Translation: ABE37321.1 .
RefSeqi WP_011500514.1. NC_007958.1.
YP_567222.1. NC_007958.1.

3D structure databases

ProteinModelPortali Q13F18.
SMRi Q13F18. Positions 2-171.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 316057.RPD_0081.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABE37321 ; ABE37321 ; RPD_0081 .
GeneIDi 4020536.
KEGGi rpd:RPD_0081.
PATRICi 23274961. VBIRhoPal120395_0079.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243509.
KOi K01462.
OMAi WATCAQH.
OrthoDBi EOG664CMF.

Enzyme and pathway databases

BioCyci RPAL316057:GHDC-82-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: BisB5.

Entry informationi

Entry nameiDEF_RHOPS
AccessioniPrimary (citable) accession number: Q13F18
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 31, 2006
Last modified: September 3, 2014
This is version 51 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi