5JF2A

Crystal structure of type 2 pdf from streptococcus agalactiae in complex with inhibitor at002
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 5jf2A00
1DEFA 1BSZA 5I2BA 5CWYA 3E3UA 1BS4A 3U7NA 4AL3A 3L87A 3PN2A 1DFFA 3G6NA 4AL2A 3UWAA 3M6RA 1LMHA 1LRYA 5CVPA 2EW5A 1WS1A 1BS6A 1BS8A 3M6OA 5CY7A 2AIAA 5CWXA 4DR8A 1RL4A 4E9BA 5E5DA 2KMNA 5JEXA 5KOBA 2AIEP 3SVJP 4JE6A 1G27A 1XEMA 1ICJA 5J46A 2OS0A 5T8ZA 3M6QA 5JF1A 1Y6HA 1LQWA 3PN4A 1RQCA 5CXJA 2AI8A 1LRUA 4EOXP 3O3JA 1ZXZA 3PN5A 5CVQA 3K6LA 5JF8A 4AZ4A 1Q1YA 1BS7A 1SZZA 3OCAA 2EW6A 5CVKA 1V3YA 3G5KA 4JE7A 1XEOA 2DEFA 4WXLA 5JEYA 3PN3A 3G5PA 1SV2A 1WS0A 2OKLA 3U7MA 5JF4A 3U7LA 4JE8A 5JF0A 1LM4A 4WXKA 5CP0A 3FWXA 3UWBA 1VEYA 5CY8A 3CMDA 1S17A 5JF5A 5JF2A 1BSKA 3STRP 4E9AA 3U04A 5JF7A 2W3UA 1G2AA 1JYMA 2AI7A 1LQYA 5CPDA 1BSJA 1XENA 2OS3A 5JF6A 5JF3A 1LM6A 1IX1A 4NT8A 3SW8P 2W3TA 5CX0A 3M6PA 3PN6A 5HGWA 1N5NA 3QU1A 1VEVA 1LMEA 5JEZA 2EW7A 1ZY1A 3U7KA 1BS5A 2AI9A 3CPMA 4DR9A 2OS1A 1VEZA 1ZY0A
chains in the Genus database with same CATH superfamily
1DEFA 1BSZA 5I2BA 5CWYA 3E3UA 1BS4A 3U7NA 4AL3A 3L87A 3PN2A 1DFFA 3G6NA 4AL2A 3UWAA 3M6RA 1LMHA 1LRYA 5CVPA 2EW5A 1WS1A 1BS6A 1BS8A 3M6OA 5CY7A 2AIAA 5CWXA 4DR8A 1RL4A 4E9BA 5E5DA 2KMNA 5JEXA 5KOBA 2AIEP 3SVJP 4JE6A 1G27A 1XEMA 1ICJA 5J46A 2OS0A 5T8ZA 3M6QA 5JF1A 1Y6HA 1LQWA 3PN4A 1RQCA 5CXJA 2AI8A 1LRUA 4EOXP 3O3JA 1ZXZA 3PN5A 5CVQA 3K6LA 5JF8A 4AZ4A 1Q1YA 1BS7A 1SZZA 3OCAA 2EW6A 5CVKA 1V3YA 3G5KA 4JE7A 1XEOA 2DEFA 4WXLA 5JEYA 3PN3A 3G5PA 1SV2A 1WS0A 2OKLA 3U7MA 5JF4A 3U7LA 4JE8A 5JF0A 1LM4A 4WXKA 5CP0A 3FWXA 3UWBA 1VEYA 5CY8A 3CMDA 1S17A 5JF5A 5JF2A 1BSKA 3STRP 4E9AA 3U04A 5JF7A 2W3UA 1G2AA 1JYMA 2AI7A 1LQYA 5CPDA 1BSJA 1XENA 2OS3A 5JF6A 5JF3A 1LM6A 1IX1A 4NT8A 3SW8P 2W3TA 5CX0A 3M6PA 3PN6A 5HGWA 1N5NA 3QU1A 1VEVA 1LMEA 5JEZA 2EW7A 1ZY1A 3U7KA 1BS5A 2AI9A 3CPMA 4DR9A 2OS1A 1VEZA 1ZY0A
chains in the Genus database with same CATH topology
1DEFA 1BSZA 5I2BA 5CWYA 3E3UA 1BS4A 3U7NA 4AL3A 3L87A 3PN2A 1DFFA 3G6NA 4AL2A 3UWAA 3M6RA 1LMHA 1LRYA 5CVPA 2EW5A 1WS1A 1BS6A 1BS8A 3M6OA 5CY7A 2AIAA 5CWXA 4DR8A 1RL4A 4E9BA 5E5DA 2KMNA 5JEXA 5KOBA 2AIEP 3SVJP 4JE6A 1G27A 1XEMA 1ICJA 5J46A 2OS0A 5T8ZA 3M6QA 5JF1A 1Y6HA 1LQWA 3PN4A 1RQCA 5CXJA 2AI8A 1LRUA 4EOXP 3O3JA 1ZXZA 3PN5A 5CVQA 3K6LA 5JF8A 4AZ4A 1Q1YA 1BS7A 1SZZA 3OCAA 2EW6A 5CVKA 1V3YA 3G5KA 4JE7A 1XEOA 2DEFA 4WXLA 5JEYA 3PN3A 3G5PA 1SV2A 1WS0A 2OKLA 3U7MA 5JF4A 3U7LA 4JE8A 5JF0A 1LM4A 4WXKA 5CP0A 3FWXA 3UWBA 1VEYA 5CY8A 3CMDA 1S17A 5JF5A 5JF2A 1BSKA 3STRP 4E9AA 3U04A 5JF7A 2W3UA 1G2AA 1JYMA 2AI7A 1LQYA 5CPDA 1BSJA 1XENA 2OS3A 5JF6A 5JF3A 1LM6A 1IX1A 4NT8A 3SW8P 2W3TA 5CX0A 3M6PA 3PN6A 5HGWA 1N5NA 3QU1A 1VEVA 1LMEA 5JEZA 2EW7A 1ZY1A 3U7KA 1BS5A 2AI9A 3CPMA 4DR9A 2OS1A 1VEZA 1ZY0A
chains in the Genus database with same CATH homology


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