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Q21PV5

- DEF_SACD2

UniProt

Q21PV5 - DEF_SACD2

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Protein

Peptide deformylase

Gene

def

Organism
Saccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 17024)
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 bindingi92 – 921IronUniRule annotation
Metal bindingi134 – 1341IronUniRule annotation
Active sitei135 – 1351UniRule annotation
Metal bindingi138 – 1381IronUniRule 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

BioCyciSDEG203122:GI2M-21-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:Sde_0021
OrganismiSaccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 17024)
Taxonomic identifieri203122 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesAlteromonadaceaeSaccharophagus
ProteomesiUP000001947: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 172172Peptide deformylasePRO_0000301092Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi203122.Sde_0021.

Structurei

3D structure databases

ProteinModelPortaliQ21PV5.
SMRiQ21PV5. Positions 1-166.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiTIMYKEG.
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.

Q21PV5-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MALLPILEFP DPRLRTIAKP VAKVDQRIRT LIDDMFETMY DAPGIGLAAT
60 70 80 90 100
QVNVHEQVLV IDLGEETKEP MVFINPSIEI LDQEHYEYEE GCLSVPGFYE
110 120 130 140 150
QVSRPKHIRV TALDRDGKEF VIEPEGLLAV CVQHEMDHLN GKLFVDYVSN
160 170
IKRQRIRKKL EKQHRQAAQS VG
Length:172
Mass (Da):19,706
Last modified:April 18, 2006 - v1
Checksum:i5BDA3D66CE356F49
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000282 Genomic DNA. Translation: ABD79285.1.
RefSeqiWP_011466509.1. NC_007912.1.
YP_525497.1. NC_007912.1.

Genome annotation databases

EnsemblBacteriaiABD79285; ABD79285; Sde_0021.
GeneIDi3968154.
KEGGisde:Sde_0021.
PATRICi23398627. VBISacDeg56404_0022.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000282 Genomic DNA. Translation: ABD79285.1 .
RefSeqi WP_011466509.1. NC_007912.1.
YP_525497.1. NC_007912.1.

3D structure databases

ProteinModelPortali Q21PV5.
SMRi Q21PV5. Positions 1-166.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 203122.Sde_0021.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABD79285 ; ABD79285 ; Sde_0021 .
GeneIDi 3968154.
KEGGi sde:Sde_0021.
PATRICi 23398627. VBISacDeg56404_0022.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci SDEG203122:GI2M-21-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: 2-40 / ATCC 43961 / DSM 17024.

Entry informationi

Entry nameiDEF_SACD2
AccessioniPrimary (citable) accession number: Q21PV5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: April 18, 2006
Last modified: November 26, 2014
This is version 60 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