Reviewed,
UniProtKB/Swiss-Prot P68826 (DEF_STAAU)
Last modified
November 25, 2008.
Version 28.
History...
Clusters with 100%,
90%,
50% identity |
Documents (2) |
Third-party data |
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Names and origin
| Protein names | Recommended name: Peptide deformylase Short name=PDF EC=3.5.1.88 Alternative name(s): Polypeptide deformylase | ||||
| Gene names |
| ||||
| Organism | Staphylococcus aureus | ||||
| Taxonomic identifier | 1280 [NCBI] | ||||
| Taxonomic lineage | Bacteria › Firmicutes › Bacillales › Staphylococcus |
Protein attributes
| Sequence length | 183 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is not processed. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | 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. |
| Catalytic activity | Formyl-L-methionyl peptide + H(2)O = formate + methionyl peptide. |
| Cofactor | Binds 1 Fe(2+) ion By similarity. |
| Sequence similarities | Belongs to the polypeptide deformylase family. |
| Mass spectrometry | Molecular weight is 20600 Da from positions 1 - 183. Determined by MALDI. Ref.2 |
Ontologies
Keywords | |
|---|---|
| Biological process | Protein biosynthesis |
| Ligand | Iron Metal-binding |
| Molecular function | Hydrolase |
| Technical term | 3D-structure |
Gene Ontology (GO) | |
| Biological process | translation Inferred from electronic annotation. Source: HAMAP |
| Molecular function | iron ion binding Inferred from electronic annotation. Source: InterPro peptide deformylase activityInferred from electronic annotation. Source: HAMAP |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 183 | 183 | Peptide deformylase | PRO_0000082843 | |||||||||||||||||||||||||||||||||
Sites | |||||||||||||||||||||||||||||||||||||
| Active site | 155 | 1 | By similarity | ||||||||||||||||||||||||||||||||||
| Metal binding | 111 | 1 | Iron | ||||||||||||||||||||||||||||||||||
| Metal binding | 154 | 1 | Iron | ||||||||||||||||||||||||||||||||||
| Metal binding | 158 | 1 | Iron | ||||||||||||||||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||||||||||||||
| Helix | 4 – 6 | 3 | |||||||||||||||||||||||||||||||||||
| Helix | 13 – 16 | 4 | |||||||||||||||||||||||||||||||||||
| Helix | 28 – 45 | 18 | |||||||||||||||||||||||||||||||||||
| Helix | 47 – 53 | 7 | |||||||||||||||||||||||||||||||||||
| Beta strand | 58 – 62 | 5 | |||||||||||||||||||||||||||||||||||
| Helix | 63 – 66 | 4 | |||||||||||||||||||||||||||||||||||
| Beta strand | 70 – 77 | 8 | |||||||||||||||||||||||||||||||||||
| Beta strand | 81 – 83 | 3 | |||||||||||||||||||||||||||||||||||
| Beta strand | 86 – 98 | 13 | |||||||||||||||||||||||||||||||||||
| Beta strand | 100 – 104 | 5 | |||||||||||||||||||||||||||||||||||
| Beta strand | 124 – 133 | 10 | |||||||||||||||||||||||||||||||||||
| Beta strand | 139 – 145 | 7 | |||||||||||||||||||||||||||||||||||
| Helix | 146 – 159 | 14 | |||||||||||||||||||||||||||||||||||
| Helix | 164 – 167 | 4 | |||||||||||||||||||||||||||||||||||
| Beta strand | 170 – 172 | 3 | |||||||||||||||||||||||||||||||||||
Sequences
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References
| [1] | "Staphylococcus aureus deformylase 1 encoding DNA." Lonetto M.A., Sylvester D.R., Warren R.L. Submitted (AUG-2000) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: WCUH29 / NCIMB 40771. |
| [2] | "Identification of Staphylococcus aureus proteins recognized by the antibody-mediated immune response to a biofilm infection." Brady R.A., Leid J.G., Camper A.K., Costerton J.W., Shirtliff M.E. Infect. Immun. 74:3415-3426(2006) [PubMed: 16714572] [Abstract] Cited for: MASS SPECTROMETRY. Strain: MRSA-M2. |
| [3] | "Structure analysis of peptide deformylases from Streptococcus pneumoniae, Staphylococcus aureus, Thermotoga maritima and Pseudomonas aeruginosa: snapshots of the oxygen sensitivity of peptide deformylase." Kreusch A., Spraggon G., Lee C.C., Klock H., McMullan D., Ng K., Shin T., Vincent J., Warner I., Ericson C., Lesley S.A. J. Mol. Biol. 330:309-321(2003) [PubMed: 12823970] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.45 ANGSTROMS). |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| AY007227 Genomic DNA. Translation: AAG02249.1. | |||||||||||||||||||||||||||||||||||||
3D structure databases | |||||||||||||||||||||||||||||||||||||
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| ModBase | Search... | ||||||||||||||||||||||||||||||||||||
Family and domain databases | |||||||||||||||||||||||||||||||||||||
| HAMAP | MF_00163. [Tree] | ||||||||||||||||||||||||||||||||||||
| InterPro | IPR000181. Fmet_deformylase. [Graphical view] | ||||||||||||||||||||||||||||||||||||
| Gene3D | G3DSA:3.90.45.10. Fmet_deformylase. 1 hit. | ||||||||||||||||||||||||||||||||||||
| PANTHER | PTHR10458. Fmet_deformylase. 1 hit. | ||||||||||||||||||||||||||||||||||||
| Pfam | PF01327. Pep_deformylase. 1 hit. [Graphical view] | ||||||||||||||||||||||||||||||||||||
| PIRSF | PIRSF004749. Pep_def. 1 hit. | ||||||||||||||||||||||||||||||||||||
| PRINTS | PR01576. PDEFORMYLASE. | ||||||||||||||||||||||||||||||||||||
| ProDom | PD003844. Fmet_deformylase. 1 hit. [Graphical view] [Entries sharing at least one domain] | ||||||||||||||||||||||||||||||||||||
| TIGRFAMs | TIGR00079. pept_deformyl. 1 hit. | ||||||||||||||||||||||||||||||||||||
| ProtoNet | Search... | ||||||||||||||||||||||||||||||||||||
Entry information
| Entry name | DEF_STAAU | ||||||||
| Accession | Primary (citable) accession number: P68826 Secondary accession number(s): Q9F4L4 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes) | ||||||||
Relevant documents
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with


