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B2KD65

- DEF_ELUMP

UniProt

B2KD65 - DEF_ELUMP

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Protein

Peptide deformylase

Gene
def, Emin_0906
Organism
Elusimicrobium minutum (strain Pei191)
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 By similarity.UniRule annotation

Catalytic activityi

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.UniRule annotation

Cofactori

Binds 1 Fe2+ ion By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi100 – 1001Iron By similarity
Metal bindingi142 – 1421Iron By similarity
Active sitei143 – 1431 By similarity
Metal bindingi146 – 1461Iron By similarity

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

BioCyciEMIN445932:GHM0-940-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase (EC:3.5.1.88)
Short name:
PDF
Alternative name(s):
Polypeptide deformylase
Gene namesi
Name:def
Ordered Locus Names:Emin_0906
OrganismiElusimicrobium minutum (strain Pei191)
Taxonomic identifieri445932 [NCBI]
Taxonomic lineageiBacteriaElusimicrobiaElusimicrobiaElusimicrobialesElusimicrobiaceaeElusimicrobium
ProteomesiUP000001029: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 176176Peptide deformylaseUniRule annotationPRO_1000097309Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi445932.Emin_0906.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiFVYHCPD.
OrthoDBiEOG664CMF.

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.

B2KD65-1 [UniParc]FASTAAdd to Basket

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MAVRRIVKYG EDILRQKLKP VDFKTLEPQL DAILQDMHDT CMSFQGAGLS    50
ANQIGLTHRI AMIFIPEKTP KGEAQKFKRY VVINPVIVSK KGCVTDEEGC 100
LSLPGLWVEI ERAESIVVHC LNEKGLPVEI HAKGFLAKAL QHEIDHLDGK 150
IFIDHADPKL KPEIKKELKK LSKNWS 176
Length:176
Mass (Da):19,873
Last modified:June 10, 2008 - v1
Checksum:i3FB5719DA52BD690
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001055 Genomic DNA. Translation: ACC98461.1.
RefSeqiYP_001875798.1. NC_010644.1.

Genome annotation databases

EnsemblBacteriaiACC98461; ACC98461; Emin_0906.
GeneIDi6262636.
KEGGiemi:Emin_0906.
PATRICi21849040. VBIEluMin86178_0948.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001055 Genomic DNA. Translation: ACC98461.1 .
RefSeqi YP_001875798.1. NC_010644.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 445932.Emin_0906.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACC98461 ; ACC98461 ; Emin_0906 .
GeneIDi 6262636.
KEGGi emi:Emin_0906.
PATRICi 21849040. VBIEluMin86178_0948.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243509.
KOi K01462.
OMAi FVYHCPD.
OrthoDBi EOG664CMF.

Enzyme and pathway databases

BioCyci EMIN445932:GHM0-940-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. "Genomic analysis of 'Elusimicrobium minutum,' the first cultivated representative of the phylum 'Elusimicrobia' (formerly termite group 1)."
    Herlemann D.P.R., Geissinger O., Ikeda-Ohtsubo W., Kunin V., Sun H., Lapidus A., Hugenholtz P., Brune A.
    Appl. Environ. Microbiol. 75:2841-2849(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Pei191.

Entry informationi

Entry nameiDEF_ELUMP
AccessioniPrimary (citable) accession number: B2KD65
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: June 10, 2008
Last modified: May 14, 2014
This is version 41 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