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B3EPG5 (DEF_CHLPB) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 37. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Peptide deformylase

Short name=PDF
EC=3.5.1.88
Alternative name(s):
Polypeptide deformylase
Gene names
Name:def
Ordered Locus Names:Cphamn1_0898
OrganismChlorobium phaeobacteroides (strain BS1) [Complete proteome] [HAMAP]
Taxonomic identifier331678 [NCBI]
Taxonomic lineageBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupChlorobium

Protein attributes

Sequence length185 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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. HAMAP-Rule MF_00163

Catalytic activity

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP-Rule MF_00163

Cofactor

Binds 1 Fe2+ ion By similarity. HAMAP-Rule MF_00163

Sequence similarities

Belongs to the polypeptide deformylase family.

Ontologies

Keywords
   Biological processProtein biosynthesis
   LigandIron
Metal-binding
   Molecular functionHydrolase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processtranslation

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Molecular_functioniron ion binding

Inferred from electronic annotation. Source: InterPro

peptide deformylase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 185185Peptide deformylase HAMAP-Rule MF_00163
PRO_1000097299

Sites

Active site1371 By similarity
Metal binding941Iron By similarity
Metal binding1361Iron By similarity
Metal binding1401Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
B3EPG5 [UniParc].

Last modified July 22, 2008. Version 1.
Checksum: CA3F50FBE356F414

FASTA18520,903
        10         20         30         40         50         60 
MILPINTYSD EVLRRKAKPL KESDAQLEEL ISNMLESMRN AEGIGLAAPQ VGVSLRLIVV 

        70         80         90        100        110        120 
DLSLAEGYEA ASPMVVINPH ILSVKSFNSM EEGCLSIPDV RGDVVRPSAI QLKYRDRNFE 

       130        140        150        160        170        180 
ECIGEFDRLA ARVIQHEIDH LDGTLFVDRM QRRDRRKIQK ELDALSRGEI NTNYPVAFHE 


DSVVK 

« Hide

References

[1]"Complete sequence of Chlorobium phaeobacteroides BS1."
US DOE Joint Genome Institute
Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Ovchinnikova G., Li T., Liu Z., Zhao F. expand/collapse author list , Overmann J., Bryant D.A., Richardson P.
Submitted (JUN-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: BS1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001101 Genomic DNA. Translation: ACE03843.1.
RefSeqYP_001959324.1. NC_010831.1.

3D structure databases

ProteinModelPortalB3EPG5.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING331678.Cphamn1_0898.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACE03843; ACE03843; Cphamn1_0898.
GeneID6374565.
KEGGcpb:Cphamn1_0898.
PATRIC21383934. VBIChlPha121022_0974.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
HOGENOMHOG000243509.
KOK01462.
OMAFSEGCLS.
OrthoDBEOG664CMF.
ProtClustDBPRK14598.

Enzyme and pathway databases

BioCycCPHA331678:GHME-923-MONOMER.

Family and domain databases

Gene3D3.90.45.10. 1 hit.
HAMAPMF_00163. Pep_deformylase.
InterProIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERPTHR10458. PTHR10458. 1 hit.
PfamPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFPIRSF004749. Pep_def. 1 hit.
PRINTSPR01576. PDEFORMYLASE.
SUPFAMSSF56420. SSF56420. 1 hit.
TIGRFAMsTIGR00079. pept_deformyl. 1 hit.
ProtoNetSearch...

Entry information

Entry nameDEF_CHLPB
AccessionPrimary (citable) accession number: B3EPG5
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: July 22, 2008
Last modified: February 19, 2014
This is version 37 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families