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Q5X9V1 (DEF_STRP6) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 65. 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:M6_Spy1677
OrganismStreptococcus pyogenes serotype M6 (strain ATCC BAA-946 / MGAS10394) [Complete proteome] [HAMAP]
Taxonomic identifier286636 [NCBI]
Taxonomic lineageBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus

Protein attributes

Sequence length204 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

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.

Mass spectrometry

Molecular mass is 22862.28 Da from positions 1 - 204. Determined by ESI. Ref.2

Ontologies

Keywords
   Biological processProtein biosynthesis
   LigandIron
Metal-binding
   Molecular functionHydrolase
   Technical termComplete proteome
Direct protein sequencing
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 – 204204Peptide deformylase HAMAP-Rule MF_00163
PRO_0000082861

Sites

Active site1751 By similarity
Metal binding1311Iron By similarity
Metal binding1741Iron By similarity
Metal binding1781Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
Q5X9V1 [UniParc].

Last modified November 23, 2004. Version 1.
Checksum: 89F8EDE94D94DC05

FASTA20422,862
        10         20         30         40         50         60 
MSAQDKLIKP SHLITMDDII REGNPTLRAV AKEVSLPLCD EDILLGEKMM QFLKHSQDPV 

        70         80         90        100        110        120 
MAEKLGLRAG VGLAAPQIDV SKRIIAVLVP NLPDKEGNPP KEAYSWQEVL YNPKIVSHSV 

       130        140        150        160        170        180 
QDAALSDGEG CLSVDRVVEG YVVRHARVTV DYYDKEGQQH RIKLKGYNAI VVQHEIDHIN 

       190        200 
GVLFYDRINA KNPFETKEEL LILD 

« Hide

References

« Hide 'large scale' references
[1]"Progress toward characterization of the group A Streptococcus metagenome: complete genome sequence of a macrolide-resistant serotype M6 strain."
Banks D.J., Porcella S.F., Barbian K.D., Beres S.B., Philips L.E., Voyich J.M., DeLeo F.R., Martin J.M., Somerville G.A., Musser J.M.
J. Infect. Dis. 190:727-738(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC BAA-946 / MGAS10394.
[2]"Two-dimensional gel electrophoresis map of Streptococcus pyogenes proteins."
Hogan D.A., Du P., Stevenson T.I., Whitton M., Kilby G.W., Rogers J., VanBogelen R.A.
Submitted (MAY-2000) to UniProtKB
Cited for: PROTEIN SEQUENCE OF 7-20; 68-101; 148-161; 166-187 AND 192-204, MASS SPECTROMETRY.
Strain: JRS4 / Serotype M6.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000003 Genomic DNA. Translation: AAT87812.1.
RefSeqYP_060995.1. NC_006086.1.

3D structure databases

ProteinModelPortalQ5X9V1.
SMRQ5X9V1. Positions 2-204.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING286636.M6_Spy1677.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAT87812; AAT87812; M6_Spy1677.
GeneID2941572.
KEGGspa:M6_Spy1677.
PATRIC19725638. VBIStrPyo30273_1743.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
HOGENOMHOG000243507.
KOK01462.
OMAHIDKENP.
OrthoDBEOG6PZXGQ.

Enzyme and pathway databases

BioCycSPYO286636:GHNO-1757-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_STRP6
AccessionPrimary (citable) accession number: Q5X9V1
Secondary accession number(s): P82590
Entry history
Integrated into UniProtKB/Swiss-Prot: December 21, 2004
Last sequence update: November 23, 2004
Last modified: May 14, 2014
This is version 65 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