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Q21PV5

- DEF_SACD2

UniProt

Q21PV5 - DEF_SACD2

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Protein

Peptide deformylase

Gene
def, Sde_0021
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 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 bindingi92 – 921Iron By similarity
Metal bindingi134 – 1341Iron By similarity
Active sitei135 – 1351 By similarity
Metal bindingi138 – 1381Iron 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

BioCyciSDEG203122:GI2M-21-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: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 deformylaseUniRule annotationPRO_0000301092Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi203122.Sde_0021.

Structurei

3D structure databases

ProteinModelPortaliQ21PV5.
SMRiQ21PV5. Positions 1-166.

Family & Domainsi

Sequence similaritiesi

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

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MALLPILEFP DPRLRTIAKP VAKVDQRIRT LIDDMFETMY DAPGIGLAAT    50
QVNVHEQVLV IDLGEETKEP MVFINPSIEI LDQEHYEYEE GCLSVPGFYE 100
QVSRPKHIRV TALDRDGKEF VIEPEGLLAV CVQHEMDHLN GKLFVDYVSN 150
IKRQRIRKKL EKQHRQAAQS VG 172
Length:172
Mass (Da):19,706
Last modified:April 18, 2006 - v1
Checksum:i5BDA3D66CE356F49
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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:
EMBL
GenBank
DDBJ
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: September 3, 2014
This is version 57 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

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