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Q38WP3

- DEF_LACSS

UniProt

Q38WP3 - DEF_LACSS

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Protein

Peptide deformylase

Gene

def

Organism
Lactobacillus sakei subsp. sakei (strain 23K)
Status
Reviewed - 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

Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi112 – 1121IronUniRule annotation
Metal bindingi155 – 1551IronUniRule annotation
Active sitei156 – 1561UniRule annotation
Metal bindingi159 – 1591IronUniRule 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 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:LCA_1087
OrganismiLactobacillus sakei subsp. sakei (strain 23K)
Taxonomic identifieri314315 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
ProteomesiUP000002707: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 185185Peptide deformylasePRO_0000301048Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi314315.LSA1087.

Structurei

3D structure databases

ProteinModelPortaliQ38WP3.
SMRiQ38WP3. Positions 1-185.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiSQDPKIA.
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.

Q38WP3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MILMKDIIRE GNPTLREIAQ PVSFPLSDED RQLAADMMTF LENSQDPEIA
60 70 80 90 100
AKYQLRAGVG LAAPQVDVSK QMSAVLVPGP EGEAPILKDV IINPKIISHS
110 120 130 140 150
VQDAALAEGE GCLSVDREVP GYVPRHDRIT LRYQDVEGVS HKIRLKNYPA
160 170 180
IVCQHEIDHL NGILFFDHIN KENPFAAPDD MIILE
Length:185
Mass (Da):20,530
Last modified:November 22, 2005 - v1
Checksum:i026C90177E5CE2C5
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CR936503 Genomic DNA. Translation: CAI55388.1.
RefSeqiYP_395697.1. NC_007576.1.

Genome annotation databases

EnsemblBacteriaiCAI55388; CAI55388; LCA_1087.
GeneIDi3777262.
KEGGilsa:LSA1087.
PATRICi22274980. VBILacSak116432_1056.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CR936503 Genomic DNA. Translation: CAI55388.1 .
RefSeqi YP_395697.1. NC_007576.1.

3D structure databases

ProteinModelPortali Q38WP3.
SMRi Q38WP3. Positions 1-185.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 314315.LSA1087.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAI55388 ; CAI55388 ; LCA_1087 .
GeneIDi 3777262.
KEGGi lsa:LSA1087.
PATRICi 22274980. VBILacSak116432_1056.

Phylogenomic databases

eggNOGi COG0242.
KOi K01462.
OMAi SQDPKIA.
OrthoDBi EOG6PZXGQ.

Family and domain databases

Gene3Di 3.90.45.10. 1 hit.
HAMAPi MF_00163. Pep_deformylase.
InterProi IPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view ]
PANTHERi PTHR10458. PTHR10458. 1 hit.
Pfami PF01327. Pep_deformylase. 1 hit.
[Graphical view ]
PIRSFi PIRSF004749. Pep_def. 1 hit.
PRINTSi PR01576. PDEFORMYLASE.
SUPFAMi SSF56420. SSF56420. 1 hit.
TIGRFAMsi TIGR00079. pept_deformyl. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 23K.

Entry informationi

Entry nameiDEF_LACSS
AccessioniPrimary (citable) accession number: Q38WP3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: November 22, 2005
Last modified: October 1, 2014
This is version 56 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