5JF7A

Crystal structure of type 2 pdf from streptococcus agalactiae in complex with inhibitor smp289
Total Genus 56
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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
56
sequence length
203
structure length
202
Chain Sequence
AAIDKLVKASHLIDMNDIIREGNPTLRKVAEEVTFPLSEKEEILGEKMMQFLKHSQDPIMAEKLGLRGGVGLAAPQLDISKRIIAVLVPNVEDAQGNPPKEAYSLQEVMYNPKVVSHSVQDAALSDGEGLSVDREVPGYVVRHARVTIEYFDKTGEKHRLKLKGYNSIVVQHEIDHIDGIMFYDRINEKNPFAVKEGLLILE
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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.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Hydrolase
molecule keywords Peptide deformylase
publication title A unique peptide deformylase platform to rationally design and challenge novel active compounds.
pubmed doi rcsb
source organism Streptococcus agalactiae
total genus 56
structure length 202
sequence length 203
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2016-04-19

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
3.90.45.10 Alpha Beta Alpha-Beta Complex Peptide Deformylase Peptide deformylase 5jf7A00
3U04A 1SZZA 5CX0A 5JF3A 2OS1A 1DFFA 1V3YA 3U7MA 4JE6A 3G5KA 1VEVA 5JF0A 1RL4A 5CWYA 3UWAA 3UWBA 3U7LA 1DEFA 1IX1A 2W3TA 5CXJA 1ZY1A 1LRYA 5I2BA 1XEMA 2EW7A 5E5DA 4EOXP 3U7NA 4DR9A 1SV2A 1BSJA 1G27A 1VEYA 1LM6A 2OS0A 3L87A 4DR8A 3M6QA 2W3UA 3K6LA 5JEYA 1N5NA 3OCAA 1Y6HA 5JEZA 1BS6A 1XEOA 2AIEP 3CPMA 5CP0A 1WS1A 2OKLA 3STRP 1RQCA 3PN2A 2AI8A 1LMHA 3CMDA 1XENA 1LMEA 1JYMA 3PN3A 4E9BA 1S17A 4NT8A 2DEFA 2AI9A 3SW8P 3FWXA 5JF6A 1Q1YA 5CWXA 3PN6A 4E9AA 5CVQA 3E3UA 5JF2A 5JEXA 2EW6A 2AI7A 1LQWA 1LRUA 5CVKA 3G5PA 3M6RA 5CPDA 1BSZA 3SVJP 3U7KA 5KOBA 2AIAA 5CY7A 3M6OA 4JE8A 1BS7A 4AL3A 5JF7A 1WS0A 1ZXZA 2OS3A 5J46A 4JE7A 1ZY0A 3G6NA 1LM4A 4AZ4A 5CY8A 3QU1A 1BS5A 4WXKA 3PN5A 5HGWA 1BS8A 3M6PA 1BSKA 1BS4A 5JF1A 3O3JA 1ICJA 2KMNA 5T8ZA 5JF5A 5JF8A 5CVPA 2EW5A 4AL2A 1LQYA 1VEZA 4WXLA 5JF4A 3PN4A 1G2AA
chains in the Genus database with same CATH superfamily
3U04A 1SZZA 5CX0A 5JF3A 2OS1A 1DFFA 1V3YA 3U7MA 4JE6A 3G5KA 1VEVA 5JF0A 1RL4A 5CWYA 3UWAA 3UWBA 3U7LA 1DEFA 1IX1A 2W3TA 5CXJA 1ZY1A 1LRYA 5I2BA 1XEMA 2EW7A 5E5DA 4EOXP 3U7NA 4DR9A 1SV2A 1BSJA 1G27A 1VEYA 1LM6A 2OS0A 3L87A 4DR8A 3M6QA 2W3UA 3K6LA 5JEYA 1N5NA 3OCAA 1Y6HA 5JEZA 1BS6A 1XEOA 2AIEP 3CPMA 5CP0A 1WS1A 2OKLA 3STRP 1RQCA 3PN2A 2AI8A 1LMHA 3CMDA 1XENA 1LMEA 1JYMA 3PN3A 4E9BA 1S17A 4NT8A 2DEFA 2AI9A 3SW8P 3FWXA 5JF6A 1Q1YA 5CWXA 3PN6A 4E9AA 5CVQA 3E3UA 5JF2A 5JEXA 2EW6A 2AI7A 1LQWA 1LRUA 5CVKA 3G5PA 3M6RA 5CPDA 1BSZA 3SVJP 3U7KA 5KOBA 2AIAA 5CY7A 3M6OA 4JE8A 1BS7A 4AL3A 5JF7A 1WS0A 1ZXZA 2OS3A 5J46A 4JE7A 1ZY0A 3G6NA 1LM4A 4AZ4A 5CY8A 3QU1A 1BS5A 4WXKA 3PN5A 5HGWA 1BS8A 3M6PA 1BSKA 1BS4A 5JF1A 3O3JA 1ICJA 2KMNA 5T8ZA 5JF5A 5JF8A 5CVPA 2EW5A 4AL2A 1LQYA 1VEZA 4WXLA 5JF4A 3PN4A 1G2AA
chains in the Genus database with same CATH topology
3U04A 1SZZA 5CX0A 5JF3A 2OS1A 1DFFA 1V3YA 3U7MA 4JE6A 3G5KA 1VEVA 5JF0A 1RL4A 5CWYA 3UWAA 3UWBA 3U7LA 1DEFA 1IX1A 2W3TA 5CXJA 1ZY1A 1LRYA 5I2BA 1XEMA 2EW7A 5E5DA 4EOXP 3U7NA 4DR9A 1SV2A 1BSJA 1G27A 1VEYA 1LM6A 2OS0A 3L87A 4DR8A 3M6QA 2W3UA 3K6LA 5JEYA 1N5NA 3OCAA 1Y6HA 5JEZA 1BS6A 1XEOA 2AIEP 3CPMA 5CP0A 1WS1A 2OKLA 3STRP 1RQCA 3PN2A 2AI8A 1LMHA 3CMDA 1XENA 1LMEA 1JYMA 3PN3A 4E9BA 1S17A 4NT8A 2DEFA 2AI9A 3SW8P 3FWXA 5JF6A 1Q1YA 5CWXA 3PN6A 4E9AA 5CVQA 3E3UA 5JF2A 5JEXA 2EW6A 2AI7A 1LQWA 1LRUA 5CVKA 3G5PA 3M6RA 5CPDA 1BSZA 3SVJP 3U7KA 5KOBA 2AIAA 5CY7A 3M6OA 4JE8A 1BS7A 4AL3A 5JF7A 1WS0A 1ZXZA 2OS3A 5J46A 4JE7A 1ZY0A 3G6NA 1LM4A 4AZ4A 5CY8A 3QU1A 1BS5A 4WXKA 3PN5A 5HGWA 1BS8A 3M6PA 1BSKA 1BS4A 5JF1A 3O3JA 1ICJA 2KMNA 5T8ZA 5JF5A 5JF8A 5CVPA 2EW5A 4AL2A 1LQYA 1VEZA 4WXLA 5JF4A 3PN4A 1G2AA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3U04 A;  1SZZ A;  5CX0 A;  5JF3 A;  2OS1 A;  1DFF A;  1V3Y A;  3U7M A;  4JE6 A;  3G5K A;  1VEV A;  5JF0 A;  1RL4 A;  5CWY A;  3UWA A;  3UWB A;  3U7L A;  1DEF A;  1IX1 A;  2W3T A;  5CXJ A;  1ZY1 A;  1LRY A;  5I2B A;  1XEM A;  2EW7 A;  5E5D A;  4EOX P;  3U7N A;  4DR9 A;  1SV2 A;  1BSJ A;  1G27 A;  1VEY A;  1LM6 A;  2OS0 A;  3L87 A;  4DR8 A;  3M6Q A;  2W3U A;  3K6L A;  5JEY A;  1N5N A;  3OCA A;  1Y6H A;  5JEZ A;  1BS6 A;  1XEO A;  2AIE P;  3CPM A;  5CP0 A;  1WS1 A;  2OKL A;  3STR P;  1RQC A;  3PN2 A;  2AI8 A;  1LMH A;  3CMD A;  1XEN A;  1LME A;  1JYM A;  3PN3 A;  4E9B A;  1S17 A;  4NT8 A;  2DEF A;  2AI9 A;  3SW8 P;  3FWX A;  5JF6 A;  1Q1Y A;  5CWX A;  3PN6 A;  4E9A A;  5CVQ A;  3E3U A;  5JF2 A;  5JEX A;  2EW6 A;  2AI7 A;  1LQW A;  1LRU A;  5CVK A;  3G5P A;  3M6R A;  5CPD A;  1BSZ A;  3SVJ P;  3U7K A;  5KOB A;  2AIA A;  5CY7 A;  3M6O A;  4JE8 A;  1BS7 A;  4AL3 A;  5JF7 A;  1WS0 A;  1ZXZ A;  2OS3 A;  5J46 A;  4JE7 A;  1ZY0 A;  3G6N A;  1LM4 A;  4AZ4 A;  5CY8 A;  3QU1 A;  1BS5 A;  4WXK A;  3PN5 A;  5HGW A;  1BS8 A;  3M6P A;  1BSK A;  1BS4 A;  5JF1 A;  3O3J A;  1ICJ A;  2KMN A;  5T8Z A;  5JF5 A;  5JF8 A;  5CVP A;  2EW5 A;  4AL2 A;  1LQY A;  1VEZ A;  4WXL A;  5JF4 A;  3PN4 A;  1G2A A; 
#chains in the Genus database with same CATH topology
 3U04 A;  1SZZ A;  5CX0 A;  5JF3 A;  2OS1 A;  1DFF A;  1V3Y A;  3U7M A;  4JE6 A;  3G5K A;  1VEV A;  5JF0 A;  1RL4 A;  5CWY A;  3UWA A;  3UWB A;  3U7L A;  1DEF A;  1IX1 A;  2W3T A;  5CXJ A;  1ZY1 A;  1LRY A;  5I2B A;  1XEM A;  2EW7 A;  5E5D A;  4EOX P;  3U7N A;  4DR9 A;  1SV2 A;  1BSJ A;  1G27 A;  1VEY A;  1LM6 A;  2OS0 A;  3L87 A;  4DR8 A;  3M6Q A;  2W3U A;  3K6L A;  5JEY A;  1N5N A;  3OCA A;  1Y6H A;  5JEZ A;  1BS6 A;  1XEO A;  2AIE P;  3CPM A;  5CP0 A;  1WS1 A;  2OKL A;  3STR P;  1RQC A;  3PN2 A;  2AI8 A;  1LMH A;  3CMD A;  1XEN A;  1LME A;  1JYM A;  3PN3 A;  4E9B A;  1S17 A;  4NT8 A;  2DEF A;  2AI9 A;  3SW8 P;  3FWX A;  5JF6 A;  1Q1Y A;  5CWX A;  3PN6 A;  4E9A A;  5CVQ A;  3E3U A;  5JF2 A;  5JEX A;  2EW6 A;  2AI7 A;  1LQW A;  1LRU A;  5CVK A;  3G5P A;  3M6R A;  5CPD A;  1BSZ A;  3SVJ P;  3U7K A;  5KOB A;  2AIA A;  5CY7 A;  3M6O A;  4JE8 A;  1BS7 A;  4AL3 A;  5JF7 A;  1WS0 A;  1ZXZ A;  2OS3 A;  5J46 A;  4JE7 A;  1ZY0 A;  3G6N A;  1LM4 A;  4AZ4 A;  5CY8 A;  3QU1 A;  1BS5 A;  4WXK A;  3PN5 A;  5HGW A;  1BS8 A;  3M6P A;  1BSK A;  1BS4 A;  5JF1 A;  3O3J A;  1ICJ A;  2KMN A;  5T8Z A;  5JF5 A;  5JF8 A;  5CVP A;  2EW5 A;  4AL2 A;  1LQY A;  1VEZ A;  4WXL A;  5JF4 A;  3PN4 A;  1G2A A; 
#chains in the Genus database with same CATH homology
 3U04 A;  1SZZ A;  5CX0 A;  5JF3 A;  2OS1 A;  1DFF A;  1V3Y A;  3U7M A;  4JE6 A;  3G5K A;  1VEV A;  5JF0 A;  1RL4 A;  5CWY A;  3UWA A;  3UWB A;  3U7L A;  1DEF A;  1IX1 A;  2W3T A;  5CXJ A;  1ZY1 A;  1LRY A;  5I2B A;  1XEM A;  2EW7 A;  5E5D A;  4EOX P;  3U7N A;  4DR9 A;  1SV2 A;  1BSJ A;  1G27 A;  1VEY A;  1LM6 A;  2OS0 A;  3L87 A;  4DR8 A;  3M6Q A;  2W3U A;  3K6L A;  5JEY A;  1N5N A;  3OCA A;  1Y6H A;  5JEZ A;  1BS6 A;  1XEO A;  2AIE P;  3CPM A;  5CP0 A;  1WS1 A;  2OKL A;  3STR P;  1RQC A;  3PN2 A;  2AI8 A;  1LMH A;  3CMD A;  1XEN A;  1LME A;  1JYM A;  3PN3 A;  4E9B A;  1S17 A;  4NT8 A;  2DEF A;  2AI9 A;  3SW8 P;  3FWX A;  5JF6 A;  1Q1Y A;  5CWX A;  3PN6 A;  4E9A A;  5CVQ A;  3E3U A;  5JF2 A;  5JEX A;  2EW6 A;  2AI7 A;  1LQW A;  1LRU A;  5CVK A;  3G5P A;  3M6R A;  5CPD A;  1BSZ A;  3SVJ P;  3U7K A;  5KOB A;  2AIA A;  5CY7 A;  3M6O A;  4JE8 A;  1BS7 A;  4AL3 A;  5JF7 A;  1WS0 A;  1ZXZ A;  2OS3 A;  5J46 A;  4JE7 A;  1ZY0 A;  3G6N A;  1LM4 A;  4AZ4 A;  5CY8 A;  3QU1 A;  1BS5 A;  4WXK A;  3PN5 A;  5HGW A;  1BS8 A;  3M6P A;  1BSK A;  1BS4 A;  5JF1 A;  3O3J A;  1ICJ A;  2KMN A;  5T8Z A;  5JF5 A;  5JF8 A;  5CVP A;  2EW5 A;  4AL2 A;  1LQY A;  1VEZ A;  4WXL A;  5JF4 A;  3PN4 A;  1G2A A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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