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B8D9R9

- DEF_BUCA5

UniProt

B8D9R9 - DEF_BUCA5

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Protein

Peptide deformylase

Gene

def

Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
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

Fe2+UniRule annotationNote: Binds 1 Fe(2+) ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi91 – 911IronUniRule annotation
Metal bindingi133 – 1331IronUniRule annotation
Active sitei134 – 1341UniRule annotation
Metal bindingi137 – 1371IronUniRule 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

BioCyciBAPH563178:GHDF-489-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:BUAP5A_489
OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
Taxonomic identifieri563178 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000006904: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 173173Peptide deformylasePRO_1000200717Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi107806.BU496.

Structurei

3D structure databases

ProteinModelPortaliB8D9R9.
SMRiB8D9R9. Positions 2-165.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiELLAICI.
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.

B8D9R9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSLLKILYYP DIRLRILAKP VKEINKKIQK IANDMIDTMY QEEGIGLAAT
60 70 80 90 100
QVNIPLQIIV VNTMEQKKNN LVLINPKIIK KEGDISIEEG CLSIPEYQAS
110 120 130 140 150
IPRSNYIQVQ AVNLDGEKIE IEAKSILSIC IQHEIDHLKG KLFIDYLSKF
160 170
KRERIQKKFE KINKKNKKFS IKE
Length:173
Mass (Da):20,038
Last modified:March 3, 2009 - v1
Checksum:iBAF78C26E56BED31
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001161 Genomic DNA. Translation: ACL30840.1.
RefSeqiYP_002468228.1. NC_011833.1.

Genome annotation databases

EnsemblBacteriaiACL30840; ACL30840; BUAP5A_489.
GeneIDi7262251.
KEGGibap:BUAP5A_489.
PATRICi21243245. VBIBucAph51993_0486.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001161 Genomic DNA. Translation: ACL30840.1 .
RefSeqi YP_002468228.1. NC_011833.1.

3D structure databases

ProteinModelPortali B8D9R9.
SMRi B8D9R9. Positions 2-165.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 107806.BU496.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL30840 ; ACL30840 ; BUAP5A_489 .
GeneIDi 7262251.
KEGGi bap:BUAP5A_489.
PATRICi 21243245. VBIBucAph51993_0486.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci BAPH563178:GHDF-489-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. "The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria."
    Moran N.A., McLaughlin H.J., Sorek R.
    Science 323:379-382(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 5A.

Entry informationi

Entry nameiDEF_BUCA5
AccessioniPrimary (citable) accession number: B8D9R9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: November 26, 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