The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
50
|
sequence length |
168
|
structure length |
168
|
Chain Sequence |
SVLQVLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENRDERLVLINPELLEKSGETGIEEGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDRLKARA
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Structure of peptide deformylase and identification of the substrate binding site.
pubmed doi rcsb |
| molecule tags |
Hydrolase
|
| source organism |
Escherichia coli
|
| molecule keywords |
PEPTIDE DEFORMYLASE
|
| total genus |
50
|
| structure length |
168
|
| sequence length |
168
|
| chains with identical sequence |
B, C
|
| ec nomenclature |
ec
3.5.1.88: Peptide deformylase. |
| pdb deposition date | 1998-03-12 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01327 | Pep_deformylase | Polypeptide deformylase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | Alpha-Beta Complex | Peptide Deformylase | Peptide deformylase |
#chains in the Genus database with same CATH superfamily 5KOB A; 2OKL A; 1JYM A; 3SVJ P; 1DEF A; 3SW8 P; 1LME A; 1G27 A; 5JF8 A; 3PN3 A; 2EW6 A; 2AI8 A; 1VEY A; 2OS0 A; 3FWX A; 2AI7 A; 5JF4 A; 1BS5 A; 3STR P; 1ICJ A; 2W3T A; 5JF2 A; 4AL3 A; 1BS4 A; 3U7K A; 3M6P A; 5T8Z A; 2AI9 A; 1ZY0 A; 3M6Q A; 3QU1 A; 2KMN A; 5CVK A; 1SV2 A; 1BS7 A; 1LQY A; 3UWB A; 5CVQ A; 5CY7 A; 1LMH A; 5I2B A; 1ZXZ A; 3G5K A; 5JF6 A; 3K6L A; 5CPD A; 1WS1 A; 1LM4 A; 1Q1Y A; 4NT8 A; 1ZY1 A; 5CXJ A; 1BSK A; 3E3U A; 4DR9 A; 3O3J A; 5J46 A; 5JF3 A; 5JEZ A; 3PN4 A; 4AL2 A; 3CMD A; 1LM6 A; 3M6R A; 3G6N A; 5JF5 A; 5CWY A; 5CVP A; 3G5P A; 4WXL A; 3U7N A; 2AIA A; 1BS8 A; 5JEX A; 4E9A A; 1V3Y A; 4DR8 A; 5HGW A; 1XEM A; 3OCA A; 5JF1 A; 3U7M A; 1BS6 A; 5JF7 A; 1RQC A; 3UWA A; 2AIE P; 5CWX A; 3PN5 A; 4JE7 A; 3U7L A; 1SZZ A; 2OS1 A; 5E5D A; 3L87 A; 2OS3 A; 1XEO A; 4E9B A; 3CPM A; 5JF0 A; 1LRY A; 1BSJ A; 1VEZ A; 3PN2 A; 2W3U A; 1N5N A; 4WXK A; 1LRU A; 1DFF A; 4EOX P; 1IX1 A; 1G2A A; 2EW7 A; 2DEF A; 1RL4 A; 1XEN A; 5CP0 A; 1LQW A; 3M6O A; 5JEY A; 4JE6 A; 3U04 A; 5CY8 A; 1Y6H A; 2EW5 A; 1BSZ A; 1S17 A; 5CX0 A; 1VEV A; 4AZ4 A; 1WS0 A; 4JE8 A; 3PN6 A; #chains in the Genus database with same CATH topology 5KOB A; 2OKL A; 1JYM A; 3SVJ P; 1DEF A; 3SW8 P; 1LME A; 1G27 A; 5JF8 A; 3PN3 A; 2EW6 A; 2AI8 A; 1VEY A; 2OS0 A; 3FWX A; 2AI7 A; 5JF4 A; 1BS5 A; 3STR P; 1ICJ A; 2W3T A; 5JF2 A; 4AL3 A; 1BS4 A; 3U7K A; 3M6P A; 5T8Z A; 2AI9 A; 1ZY0 A; 3M6Q A; 3QU1 A; 2KMN A; 5CVK A; 1SV2 A; 1BS7 A; 1LQY A; 3UWB A; 5CVQ A; 5CY7 A; 1LMH A; 5I2B A; 1ZXZ A; 3G5K A; 5JF6 A; 3K6L A; 5CPD A; 1WS1 A; 1LM4 A; 1Q1Y A; 4NT8 A; 1ZY1 A; 5CXJ A; 1BSK A; 3E3U A; 4DR9 A; 3O3J A; 5J46 A; 5JF3 A; 5JEZ A; 3PN4 A; 4AL2 A; 3CMD A; 1LM6 A; 3M6R A; 3G6N A; 5JF5 A; 5CWY A; 5CVP A; 3G5P A; 4WXL A; 3U7N A; 2AIA A; 1BS8 A; 5JEX A; 4E9A A; 1V3Y A; 4DR8 A; 5HGW A; 1XEM A; 3OCA A; 5JF1 A; 3U7M A; 1BS6 A; 5JF7 A; 1RQC A; 3UWA A; 2AIE P; 5CWX A; 3PN5 A; 4JE7 A; 3U7L A; 1SZZ A; 2OS1 A; 5E5D A; 3L87 A; 2OS3 A; 1XEO A; 4E9B A; 3CPM A; 5JF0 A; 1LRY A; 1BSJ A; 1VEZ A; 3PN2 A; 2W3U A; 1N5N A; 4WXK A; 1LRU A; 1DFF A; 4EOX P; 1IX1 A; 1G2A A; 2EW7 A; 2DEF A; 1RL4 A; 1XEN A; 5CP0 A; 1LQW A; 3M6O A; 5JEY A; 4JE6 A; 3U04 A; 5CY8 A; 1Y6H A; 2EW5 A; 1BSZ A; 1S17 A; 5CX0 A; 1VEV A; 4AZ4 A; 1WS0 A; 4JE8 A; 3PN6 A; #chains in the Genus database with same CATH homology 5KOB A; 2OKL A; 1JYM A; 3SVJ P; 1DEF A; 3SW8 P; 1LME A; 1G27 A; 5JF8 A; 3PN3 A; 2EW6 A; 2AI8 A; 1VEY A; 2OS0 A; 3FWX A; 2AI7 A; 5JF4 A; 1BS5 A; 3STR P; 1ICJ A; 2W3T A; 5JF2 A; 4AL3 A; 1BS4 A; 3U7K A; 3M6P A; 5T8Z A; 2AI9 A; 1ZY0 A; 3M6Q A; 3QU1 A; 2KMN A; 5CVK A; 1SV2 A; 1BS7 A; 1LQY A; 3UWB A; 5CVQ A; 5CY7 A; 1LMH A; 5I2B A; 1ZXZ A; 3G5K A; 5JF6 A; 3K6L A; 5CPD A; 1WS1 A; 1LM4 A; 1Q1Y A; 4NT8 A; 1ZY1 A; 5CXJ A; 1BSK A; 3E3U A; 4DR9 A; 3O3J A; 5J46 A; 5JF3 A; 5JEZ A; 3PN4 A; 4AL2 A; 3CMD A; 1LM6 A; 3M6R A; 3G6N A; 5JF5 A; 5CWY A; 5CVP A; 3G5P A; 4WXL A; 3U7N A; 2AIA A; 1BS8 A; 5JEX A; 4E9A A; 1V3Y A; 4DR8 A; 5HGW A; 1XEM A; 3OCA A; 5JF1 A; 3U7M A; 1BS6 A; 5JF7 A; 1RQC A; 3UWA A; 2AIE P; 5CWX A; 3PN5 A; 4JE7 A; 3U7L A; 1SZZ A; 2OS1 A; 5E5D A; 3L87 A; 2OS3 A; 1XEO A; 4E9B A; 3CPM A; 5JF0 A; 1LRY A; 1BSJ A; 1VEZ A; 3PN2 A; 2W3U A; 1N5N A; 4WXK A; 1LRU A; 1DFF A; 4EOX P; 1IX1 A; 1G2A A; 2EW7 A; 2DEF A; 1RL4 A; 1XEN A; 5CP0 A; 1LQW A; 3M6O A; 5JEY A; 4JE6 A; 3U04 A; 5CY8 A; 1Y6H A; 2EW5 A; 1BSZ A; 1S17 A; 5CX0 A; 1VEV A; 4AZ4 A; 1WS0 A; 4JE8 A; 3PN6 A;
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