5JF3A

Crystal structure of type 2 pdf from streptococcus agalactiae in complex with inhibitor at018
Total Genus 59
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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
59
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 59
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 5jf3A00
1Q1YA 5JEYA 5KOBA 5JF8A 4JE6A 1BS6A 1WS1A 5CVPA 4E9BA 3U04A 1RQCA 1BSKA 4DR9A 2W3TA 5T8ZA 1VEYA 5CWXA 1RL4A 1VEZA 2AI8A 5CVKA 4AL3A 4EOXP 3PN6A 3U7KA 5CWYA 1LRUA 3G5PA 1DFFA 5CXJA 2OS1A 3K6LA 3U7MA 1G27A 4WXLA 3M6OA 3PN3A 5JF1A 1WS0A 1BS5A 3M6QA 2OS0A 4DR8A 5JF7A 3E3UA 2W3UA 1LMEA 3CPMA 3G5KA 5I2BA 3U7LA 5JF3A 5JF2A 2DEFA 2EW5A 5CVQA 4JE8A 3OCAA 1LQWA 1BS4A 3PN5A 1BS8A 1LMHA 2OKLA 3SW8P 4WXKA 1BSJA 5CX0A 5JF4A 5CPDA 1XEOA 5JEXA 5CY7A 5CY8A 4JE7A 3PN4A 2EW6A 1V3YA 3STRP 1XEMA 3M6PA 1SV2A 1S17A 1VEVA 2OS3A 5E5DA 1ZY0A 5JF5A 1G2AA 3U7NA 3FWXA 2AI7A 1ICJA 1BS7A 2AIAA 3QU1A 1ZY1A 1DEFA 4AZ4A 4E9AA 3G6NA 1JYMA 1LM4A 5JF6A 1LQYA 4NT8A 2KMNA 3PN2A 1Y6HA 2AI9A 4AL2A 1XENA 5CP0A 3UWAA 3M6RA 1SZZA 1BSZA 5JEZA 5JF0A 3UWBA 2AIEP 3O3JA 1IX1A 5J46A 1LM6A 2EW7A 1LRYA 3CMDA 3L87A 1ZXZA 3SVJP 5HGWA 1N5NA
chains in the Genus database with same CATH superfamily
1Q1YA 5JEYA 5KOBA 5JF8A 4JE6A 1BS6A 1WS1A 5CVPA 4E9BA 3U04A 1RQCA 1BSKA 4DR9A 2W3TA 5T8ZA 1VEYA 5CWXA 1RL4A 1VEZA 2AI8A 5CVKA 4AL3A 4EOXP 3PN6A 3U7KA 5CWYA 1LRUA 3G5PA 1DFFA 5CXJA 2OS1A 3K6LA 3U7MA 1G27A 4WXLA 3M6OA 3PN3A 5JF1A 1WS0A 1BS5A 3M6QA 2OS0A 4DR8A 5JF7A 3E3UA 2W3UA 1LMEA 3CPMA 3G5KA 5I2BA 3U7LA 5JF3A 5JF2A 2DEFA 2EW5A 5CVQA 4JE8A 3OCAA 1LQWA 1BS4A 3PN5A 1BS8A 1LMHA 2OKLA 3SW8P 4WXKA 1BSJA 5CX0A 5JF4A 5CPDA 1XEOA 5JEXA 5CY7A 5CY8A 4JE7A 3PN4A 2EW6A 1V3YA 3STRP 1XEMA 3M6PA 1SV2A 1S17A 1VEVA 2OS3A 5E5DA 1ZY0A 5JF5A 1G2AA 3U7NA 3FWXA 2AI7A 1ICJA 1BS7A 2AIAA 3QU1A 1ZY1A 1DEFA 4AZ4A 4E9AA 3G6NA 1JYMA 1LM4A 5JF6A 1LQYA 4NT8A 2KMNA 3PN2A 1Y6HA 2AI9A 4AL2A 1XENA 5CP0A 3UWAA 3M6RA 1SZZA 1BSZA 5JEZA 5JF0A 3UWBA 2AIEP 3O3JA 1IX1A 5J46A 1LM6A 2EW7A 1LRYA 3CMDA 3L87A 1ZXZA 3SVJP 5HGWA 1N5NA
chains in the Genus database with same CATH topology
1Q1YA 5JEYA 5KOBA 5JF8A 4JE6A 1BS6A 1WS1A 5CVPA 4E9BA 3U04A 1RQCA 1BSKA 4DR9A 2W3TA 5T8ZA 1VEYA 5CWXA 1RL4A 1VEZA 2AI8A 5CVKA 4AL3A 4EOXP 3PN6A 3U7KA 5CWYA 1LRUA 3G5PA 1DFFA 5CXJA 2OS1A 3K6LA 3U7MA 1G27A 4WXLA 3M6OA 3PN3A 5JF1A 1WS0A 1BS5A 3M6QA 2OS0A 4DR8A 5JF7A 3E3UA 2W3UA 1LMEA 3CPMA 3G5KA 5I2BA 3U7LA 5JF3A 5JF2A 2DEFA 2EW5A 5CVQA 4JE8A 3OCAA 1LQWA 1BS4A 3PN5A 1BS8A 1LMHA 2OKLA 3SW8P 4WXKA 1BSJA 5CX0A 5JF4A 5CPDA 1XEOA 5JEXA 5CY7A 5CY8A 4JE7A 3PN4A 2EW6A 1V3YA 3STRP 1XEMA 3M6PA 1SV2A 1S17A 1VEVA 2OS3A 5E5DA 1ZY0A 5JF5A 1G2AA 3U7NA 3FWXA 2AI7A 1ICJA 1BS7A 2AIAA 3QU1A 1ZY1A 1DEFA 4AZ4A 4E9AA 3G6NA 1JYMA 1LM4A 5JF6A 1LQYA 4NT8A 2KMNA 3PN2A 1Y6HA 2AI9A 4AL2A 1XENA 5CP0A 3UWAA 3M6RA 1SZZA 1BSZA 5JEZA 5JF0A 3UWBA 2AIEP 3O3JA 1IX1A 5J46A 1LM6A 2EW7A 1LRYA 3CMDA 3L87A 1ZXZA 3SVJP 5HGWA 1N5NA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
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