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Protein

Peptide deformylase 1

Gene

def1

Organism
Gloeobacter violaceus (strain PCC 7421)
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 bindingi153 – 1531IronUniRule annotation
Metal bindingi195 – 1951IronUniRule annotation
Active sitei196 – 1961UniRule annotation
Metal bindingi199 – 1991IronUniRule 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

BioCyciGVIO251221:GH9A-1751-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase 1UniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDF 1UniRule annotation
Alternative name(s):
Polypeptide deformylase 1UniRule annotation
Gene namesi
Name:def1UniRule annotation
Ordered Locus Names:glr1729
OrganismiGloeobacter violaceus (strain PCC 7421)
Taxonomic identifieri251221 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaGloeobacteriaGloeobacteralesGloeobacter
ProteomesiUP000000557 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 227227Peptide deformylase 1PRO_0000082785Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi251221.glr1729.

Structurei

3D structure databases

ProteinModelPortaliQ7NJV3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243508.
InParanoidiQ7NJV3.
KOiK01462.
OrthoDBiEOG664CMF.
PhylomeDBiQ7NJV3.

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]
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

Sequencei

Sequence statusi: Complete.

Q7NJV3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MHLKRAYPKD CLSGVGSNAC RIGDRQSRYP VTIECESTGT SGGGVYEIVK
60 70 80 90 100
TGDPVLRLTA KPLNSDEIQS EAIQQLIAAM AERMREAPGV GLAAPQVGVS
110 120 130 140 150
VQLVVIEDRP EYIERLSGAE RREREREPVP FHVLINPVLS VEGEESAVFF
160 170 180 190 200
EGCLSIPGYQ GLVARARVVR VEALDERAAP VVIRAHGWYA RILQHEIDHL
210 220
NGLLCVDRMD LQTFSTLENY DRFWRGG
Length:227
Mass (Da):25,170
Last modified:December 15, 2003 - v1
Checksum:iCB0A4FE000DC1551
GO

Sequence cautioni

The sequence BAC89670.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000045 Genomic DNA. Translation: BAC89670.1. Different initiation.
RefSeqiNP_924675.1. NC_005125.1.

Genome annotation databases

EnsemblBacteriaiBAC89670; BAC89670; BAC89670.
GeneIDi2600131.
KEGGigvi:glr1729.
PATRICi22042901. VBIGloVio86258_1757.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000045 Genomic DNA. Translation: BAC89670.1. Different initiation.
RefSeqiNP_924675.1. NC_005125.1.

3D structure databases

ProteinModelPortaliQ7NJV3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi251221.glr1729.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC89670; BAC89670; BAC89670.
GeneIDi2600131.
KEGGigvi:glr1729.
PATRICi22042901. VBIGloVio86258_1757.

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243508.
InParanoidiQ7NJV3.
KOiK01462.
OrthoDBiEOG664CMF.
PhylomeDBiQ7NJV3.

Enzyme and pathway databases

BioCyciGVIO251221:GH9A-1751-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]
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 7421.

Entry informationi

Entry nameiDEF1_GLOVI
AccessioniPrimary (citable) accession number: Q7NJV3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: December 15, 2003
Last modified: June 24, 2015
This is version 71 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.