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Protein

Peptide deformylase

Gene

def

Organism
Streptococcus gordonii (strain Challis / ATCC 35105 / CH1 / DL1 / V288)
Status
Reviewed-Annotation score: 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

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi131 – 1311IronUniRule annotation
Metal bindingi174 – 1741IronUniRule annotation
Active sitei175 – 1751UniRule annotation
Metal bindingi178 – 1781IronUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciSGOR467705:GH3R-320-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:SGO_0321
OrganismiStreptococcus gordonii (strain Challis / ATCC 35105 / CH1 / DL1 / V288)
Taxonomic identifieri29390 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus
ProteomesiUP000001131 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 204204Peptide deformylasePRO_1000076952Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi467705.SGO_0321.

Structurei

3D structure databases

ProteinModelPortaliA8AV30.
SMRiA8AV30. Positions 2-204.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243507.
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.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

Sequencei

Sequence statusi: Complete.

A8AV30-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVIEKLIKP AHLIDMRDII REGNPTLRAV AEEVSFPLAD EDILLGEKMM
60 70 80 90 100
QFLHNSQDPV MAEKLGLRGG VGLAAPQLDI SRRIIAVLLP NPEDENGNSP
110 120 130 140 150
QEAYALKEVM YNPKIVAHSV QDAALADGEG CLSVDRDVPG YVVRHARVTV
160 170 180 190 200
DYFDKNGEKH RVKLKGYKAI VVQHEIDHIN GIMFYDRINE TDPFAIKEGM

LILE
Length:204
Mass (Da):22,780
Last modified:October 23, 2007 - v1
Checksum:i58DF8240B70C42A6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000725 Genomic DNA. Translation: ABV09658.1.
RefSeqiYP_001449640.1. NC_009785.1.

Genome annotation databases

EnsemblBacteriaiABV09658; ABV09658; SGO_0321.
KEGGisgo:SGO_0321.
PATRICi19658603. VBIStrGor124371_0322.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000725 Genomic DNA. Translation: ABV09658.1.
RefSeqiYP_001449640.1. NC_009785.1.

3D structure databases

ProteinModelPortaliA8AV30.
SMRiA8AV30. Positions 2-204.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi467705.SGO_0321.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABV09658; ABV09658; SGO_0321.
KEGGisgo:SGO_0321.
PATRICi19658603. VBIStrGor124371_0322.

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243507.
KOiK01462.
OMAiQDPVMGE.
OrthoDBiEOG6PZXGQ.

Enzyme and pathway databases

BioCyciSGOR467705:GH3R-320-MONOMER.

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.
ProtoNetiSearch...

Publicationsi

  1. "Genome-wide transcriptional changes in Streptococcus gordonii in response to competence signaling peptide."
    Vickerman M.M., Iobst S., Jesionowski A.M., Gill S.R.
    J. Bacteriol. 189:7799-7807(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Challis / ATCC 35105 / CH1 / DL1 / V288.

Entry informationi

Entry nameiDEF_STRGC
AccessioniPrimary (citable) accession number: A8AV30
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: October 23, 2007
Last modified: April 1, 2015
This is version 53 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

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.