HAMAP rule MF_00163
General rule information
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| Accession | MF_00163 |
| Dates | 1-JUN-2001 (Created)
28-NOV-2023 (Last updated, Version 32) |
| Name | Pep_deformylase |
| Scope(s) |
Bacteria |
| Template(s) | P0A6K3 (DEF_ECOLI); O31410 (DEF2_GEOSE); Q93LE9 (DEF_LEPIN); P68826 (DEF_STAAU); Q45495 (DEF2_BACSU); P43522 (DEF_THETH); [ Recover all ] |
| Triggered by |
HAMAP; MF_00163 (Get profile general information and statistics) |
Propagated annotation
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Identifier, protein and gene names
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| Identifier | DEF |
| Protein name | RecName: Full=Peptide deformylase; Short=PDF; EC=3.5.1.88; AltName: Full=Polypeptide deformylase; |
| Gene name | Name=def; |
Comments
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| 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. |
| CATALYTIC ACTIVITY | Reaction=H2O + N-terminal N-formyl-L-methionyl-[peptide] = formate + N- terminal L-methionyl-[peptide]; Xref=Rhea:RHEA:24420, Rhea:RHEA- COMP:10639, Rhea:RHEA-COMP:10640, ChEBI:CHEBI:15377, ChEBI:CHEBI:15740, ChEBI:CHEBI:49298, ChEBI:CHEBI:64731; EC=3.5.1.88; |
| case <FTGroup:1> | |
| COFACTOR | Name=Fe(2+); Xref=ChEBI:CHEBI:29033; Note=Binds 1 Fe(2+) ion.; |
| end case | |
| SIMILARITY | Belongs to the polypeptide deformylase family. |
Keywords
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| Protein biosynthesis | |
| Hydrolase | |
| case <FTGroup:1> | |
| Iron | |
| Metal-binding | |
| end case | |
Gene Ontology
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| GO:0042586; Molecular function:peptide deformylase activity |
| GO:0006412; Biological process:translation |
Cross-references
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| Pfam | PF01327; Pep_deformylase; 1; |
| PRINTS | PR01576; PDEFORMYLASE; 1; |
| NCBIfam | TIGR00079; Pept_deformyl; 1; |
Features
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| From: DEF_ECOLI (P0A6K3) | ||||||||||||
| Key | From | To | Description | Tag | Condition | FTGroup | ||||||
| ACT_SITE | 134 | 134 | E | |||||||||
| BINDING | 91 | 91 | /ligand="Fe cation" /ligand_id="ChEBI:CHEBI:24875" |
C | 1 | |||||||
| BINDING | 133 | 133 | /ligand="Fe cation" /ligand_id="ChEBI:CHEBI:24875" |
H | 1 | |||||||
| BINDING | 137 | 137 | /ligand="Fe cation" /ligand_id="ChEBI:CHEBI:24875" |
H | 1 | |||||||
Additional information
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| Size range | 136-232 amino acids |
| Related rules |
None |
| Fusion | Nter: None Cter: None |
| Comments | Possible wrong start in a number of bacteria. Def-like proteins exist a number of bacteria and lack some active site and metal-binding residues. |