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Q89BN9

- DEF_BRADU

UniProt

Q89BN9 - DEF_BRADU

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Protein

Peptide deformylase

Gene
def, bll8109
Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
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 bindingi98 – 981Iron By similarity
Metal bindingi140 – 1401Iron By similarity
Active sitei141 – 1411 By similarity
Metal bindingi144 – 1441Iron 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

BioCyciBJAP224911:GJEJ-8167-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:bll8109
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
ProteomesiUP000002526: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 174174Peptide deformylaseUniRule annotationPRO_0000082751Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi224911.bll8109.

Structurei

3D structure databases

ProteinModelPortaliQ89BN9.
SMRiQ89BN9. Positions 2-172.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OrthoDBiEOG664CMF.
PhylomeDBiQ89BN9.

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.

Q89BN9-1 [UniParc]FASTAAdd to Basket

« Hide

MALREIIILP DKQLRLVSKP IEKVTTEIRK LADDMFETMY DAPGIGLAAI    50
QIAQPLRLIT MDLAKRDENG ETKPEPRVFI NPEVIASSEE LSVYEEGCLS 100
IPEYYEEVER PAKVRVRFTD LDGKVHEEDA EGLYATCIQH EIDHLNGVLF 150
VDYLSKLKRD RVLKKFEKAA KRAE 174
Length:174
Mass (Da):19,930
Last modified:June 1, 2003 - v1
Checksum:iC4D96157F6D26558
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000040 Genomic DNA. Translation: BAC53374.1.
RefSeqiNP_774749.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC53374; BAC53374; BAC53374.
GeneIDi1049081.
KEGGibja:bll8109.
PATRICi21200236. VBIBraJap65052_8344.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000040 Genomic DNA. Translation: BAC53374.1 .
RefSeqi NP_774749.1. NC_004463.1.

3D structure databases

ProteinModelPortali Q89BN9.
SMRi Q89BN9. Positions 2-172.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224911.bll8109.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC53374 ; BAC53374 ; BAC53374 .
GeneIDi 1049081.
KEGGi bja:bll8109.
PATRICi 21200236. VBIBraJap65052_8344.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243509.
KOi K01462.
OrthoDBi EOG664CMF.
PhylomeDBi Q89BN9.

Enzyme and pathway databases

BioCyci BJAP224911:GJEJ-8167-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: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Entry informationi

Entry nameiDEF_BRADU
AccessioniPrimary (citable) accession number: Q89BN9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: June 1, 2003
Last modified: July 9, 2014
This is version 65 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