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Q04B51

- DEF_LACDB

UniProt

Q04B51 - DEF_LACDB

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Protein

Peptide deformylase

Gene

def

Organism
Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC BAA-365)
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 bindingi111 – 1111IronUniRule annotation
Metal bindingi154 – 1541IronUniRule annotation
Active sitei155 – 1551UniRule annotation
Metal bindingi158 – 1581IronUniRule 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

Enzyme and pathway databases

BioCyciLDEL321956:GI15-693-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:LBUL_0695
OrganismiLactobacillus delbrueckii subsp. bulgaricus (strain ATCC BAA-365)
Taxonomic identifieri321956 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
ProteomesiUP000000665: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 184184Peptide deformylasePRO_0000301045Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi321956.LBUL_0695.

Structurei

3D structure databases

ProteinModelPortaliQ04B51.
SMRiQ04B51. Positions 1-183.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243507.
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.

Q04B51-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MILMKDIVRD GDPVLRQVAQ KLTFPLSDHY RKLADDMMEY LVNSQDPKIA
60 70 80 90 100
AKHQLRAGVG LAAPQVGEGV SMAALLVPDD KGEIIFKEVY VNPEIISESV
110 120 130 140 150
RKTCLSEGEG CLSVDKVIDG YVPRPNKVTV HYWTVDGEEK AIRLKGYPAI
160 170 180
VSGHEIDHLN GHLFYDRINK ENPFALDEDT IVIY
Length:184
Mass (Da):20,591
Last modified:November 14, 2006 - v1
Checksum:iD2DE9DAEA0ABF037
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000412 Genomic DNA. Translation: ABJ58321.1.
RefSeqiWP_011678143.1. NC_008529.1.
YP_812759.1. NC_008529.1.

Genome annotation databases

EnsemblBacteriaiABJ58321; ABJ58321; LBUL_0695.
GeneIDi4436438.
KEGGilbu:LBUL_0695.
PATRICi22221237. VBILacDel70259_0696.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000412 Genomic DNA. Translation: ABJ58321.1 .
RefSeqi WP_011678143.1. NC_008529.1.
YP_812759.1. NC_008529.1.

3D structure databases

ProteinModelPortali Q04B51.
SMRi Q04B51. Positions 1-183.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 321956.LBUL_0695.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABJ58321 ; ABJ58321 ; LBUL_0695 .
GeneIDi 4436438.
KEGGi lbu:LBUL_0695.
PATRICi 22221237. VBILacDel70259_0696.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243507.
KOi K01462.
OMAi SQDPKIA.
OrthoDBi EOG6PZXGQ.

Enzyme and pathway databases

BioCyci LDEL321956:GI15-693-MONOMER.

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: ATCC BAA-365.

Entry informationi

Entry nameiDEF_LACDB
AccessioniPrimary (citable) accession number: Q04B51
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: November 14, 2006
Last modified: October 1, 2014
This is version 54 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3