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Protein

Peptide deformylase 2

Gene

def2

Organism
Rickettsia conorii (strain ATCC VR-613 / Malish 7)
Status
Reviewed-Annotation score: Annotation score: 3 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

Fe2+UniRule annotationNote: Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi120 – 1201IronUniRule annotation
Metal bindingi162 – 1621IronUniRule annotation
Active sitei163 – 1631UniRule annotation
Metal bindingi166 – 1661IronUniRule 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

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase 2UniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDF 2UniRule annotation
Alternative name(s):
Polypeptide deformylase 2UniRule annotation
Gene namesi
Name:def2UniRule annotation
Ordered Locus Names:RC0080
OrganismiRickettsia conorii (strain ATCC VR-613 / Malish 7)
Taxonomic identifieri272944 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiaspotted fever group
ProteomesiUP000000816: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 202202Peptide deformylase 2PRO_0000082830Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272944.RC0080.

Structurei

3D structure databases

ProteinModelPortaliQ92JI7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000010827.
KOiK01462.
OMAiQDPVMGE.
OrthoDBiEOG6PZXGQ.

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.

Sequencei

Sequence statusi: Complete.

Q92JI7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKNENNISLP QYVTLNIQTL NSSEDKTIRI KAKTLNFPLS SEDLRDISIL
60 70 80 90 100
EKKYDQEENC AGLAAPQIGI SKCIIIFAVH EDAELKKWHP DLKDTMPKTI
110 120 130 140 150
WINPSYKPIG IDKHEDYEGC FSVENATGPV ARFKKIHYHA YDINGNQIQG
160 170 180 190 200
IAEGFLARVI QHEIDHLNGK VFLDYVAPKK IMTKEEYLEM RKKAMEQENI

KS
Length:202
Mass (Da):23,191
Last modified:September 19, 2002 - v2
Checksum:i9A108195359D1B82
GO

Sequence cautioni

The sequence AAL02618.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006914 Genomic DNA. Translation: AAL02618.1. Different initiation.
PIRiH97709.
RefSeqiNP_359717.1. NC_003103.1.

Genome annotation databases

EnsemblBacteriaiAAL02618; AAL02618; RC0080.
GeneIDi928534.
KEGGirco:RC0080.
PATRICi17887262. VBIRicCon45613_0095.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006914 Genomic DNA. Translation: AAL02618.1. Different initiation.
PIRiH97709.
RefSeqiNP_359717.1. NC_003103.1.

3D structure databases

ProteinModelPortaliQ92JI7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272944.RC0080.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL02618; AAL02618; RC0080.
GeneIDi928534.
KEGGirco:RC0080.
PATRICi17887262. VBIRicCon45613_0095.

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000010827.
KOiK01462.
OMAiQDPVMGE.
OrthoDBiEOG6PZXGQ.

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.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC VR-613 / Malish 7.

Entry informationi

Entry nameiDEF2_RICCN
AccessioniPrimary (citable) accession number: Q92JI7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: September 19, 2002
Last modified: January 7, 2015
This is version 71 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Rickettsia conorii
    (strain Malish 7): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.