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Q7VKK9

- DEF_HAEDU

UniProt

Q7VKK9 - DEF_HAEDU

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Protein

Peptide deformylase

Gene

def

Organism
Haemophilus ducreyi (strain 35000HP / ATCC 700724)
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 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

BioCyciHDUC233412:GH5F-1702-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:HD_1889
OrganismiHaemophilus ducreyi (strain 35000HP / ATCC 700724)
Taxonomic identifieri233412 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeHaemophilus
ProteomesiUP000001022: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 171171Peptide deformylasePRO_0000082787Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi233412.HD1889.

Structurei

3D structure databases

ProteinModelPortaliQ7VKK9.
SMRiQ7VKK9. Positions 2-168.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
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.

Q7VKK9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSVLQVVLYP DDRLTKVCEP VTQVDDELNQ FIDDMFDTMY QEGGIGLAAS
60 70 80 90 100
QVGVLKRVIT IDIEGDKTNQ VVLINPEILE SCGETGIEEG CLSIPGYRAL
110 120 130 140 150
VPRKEKITVK ALNRQGEEVI YHADDLFAIC IQHEIDHLNG IVFVDHISNL
160 170
KRQRIKDKMQ KLKKQLYRSK A
Length:171
Mass (Da):19,369
Last modified:October 1, 2003 - v1
Checksum:i344DCD9AB278CC12
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE017143 Genomic DNA. Translation: AAP96618.1.
RefSeqiNP_874229.1. NC_002940.2.
WP_010945646.1. NC_002940.2.

Genome annotation databases

EnsemblBacteriaiAAP96618; AAP96618; HD_1889.
GeneIDi1491726.
KEGGihdu:HD1889.
PATRICi20179926. VBIHaeDuc133973_1583.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE017143 Genomic DNA. Translation: AAP96618.1 .
RefSeqi NP_874229.1. NC_002940.2.
WP_010945646.1. NC_002940.2.

3D structure databases

ProteinModelPortali Q7VKK9.
SMRi Q7VKK9. Positions 2-168.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 233412.HD1889.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAP96618 ; AAP96618 ; HD_1889 .
GeneIDi 1491726.
KEGGi hdu:HD1889.
PATRICi 20179926. VBIHaeDuc133973_1583.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci HDUC233412:GH5F-1702-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 complete genome sequence of Haemophilus ducreyi."
    Munson R.S. Jr., Ray W.C., Mahairas G., Sabo P., Mungur R., Johnson L., Nguyen D., Wang J., Forst C., Hood L.
    Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 35000HP / ATCC 700724.

Entry informationi

Entry nameiDEF_HAEDU
AccessioniPrimary (citable) accession number: Q7VKK9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: October 1, 2003
Last modified: October 29, 2014
This is version 66 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