5CVKA

Structure of xoo1075, a peptide deformyase from xanthomonas oryzae pv. oryze, in complex with fragment 493
Total Genus 47
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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
47
sequence length
171
structure length
169
Chain Sequence
MIRDIIRMGDKRLLRVAPQVTNLGSAELHALVSDMFETMGAAHGVGLAAPQIAVDLQLMVFGFEARYPEAPAVPLTALANAQIEPLSDEMENGWEGCLSIPGLRAVIPRYRYIRYRGFAPDGSPIEREAEGFHARVVQHEYDHLVGRLYPSRIENFDTFGFDDVLSYDL
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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/hydrolase inhibitor
molecule keywords Peptide deformylase
publication title Structure of Xoo1075, a peptide deformyase from Xanthomonas oryzae pv.oryze, in complex with fragment 493
rcsb
source organism Xanthomonas oryzae pv. oryzae kacc10331
total genus 47
structure length 169
sequence length 171
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2015-07-27

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 5cvkA00
3PN4A 5E5DA 1ICJA 5JF4A 1JYMA 4E9BA 2AI8A 4EOXP 3G5PA 5JF3A 4E9AA 1WS1A 1Y6HA 3O3JA 5HGWA 3M6PA 3OCAA 1BSKA 4NT8A 2AI7A 3STRP 2OKLA 1S17A 5JEYA 1LM4A 1BS8A 1ZY1A 5JF7A 3PN3A 5JF0A 1LRYA 1BSZA 1BSJA 1VEVA 3K6LA 1SZZA 5JEZA 2DEFA 1VEZA 2AI9A 5JF2A 2KMNA 5CVQA 5JF1A 5KOBA 3FWXA 2OS3A 3G5KA 1DEFA 2AIAA 3CMDA 5JF5A 1RQCA 1BS6A 1LQWA 2OS1A 5CVKA 1G2AA 1DFFA 4AL2A 1BS5A 2EW7A 1VEYA 3U7MA 5JF8A 5T8ZA 1Q1YA 1SV2A 2W3UA 4JE7A 1XEMA 3CPMA 3L87A 3U04A 5CY7A 3M6RA 3M6QA 3PN5A 1BS7A 4WXKA 5CP0A 5CXJA 4DR8A 3QU1A 3UWBA 1RL4A 1ZY0A 1WS0A 5JF6A 3G6NA 3SW8P 5JEXA 4AZ4A 3PN6A 2AIEP 1IX1A 3M6OA 2EW5A 1XEOA 3E3UA 2EW6A 4AL3A 5CVPA 1ZXZA 1LMHA 1N5NA 3SVJP 5CWYA 1LRUA 5CWXA 3U7NA 2W3TA 1LMEA 3U7KA 1G27A 1V3YA 3UWAA 4DR9A 3U7LA 1XENA 2OS0A 4JE6A 4WXLA 1BS4A 1LQYA 5CX0A 3PN2A 5J46A 5CY8A 4JE8A 5CPDA 5I2BA 1LM6A
chains in the Genus database with same CATH superfamily
3PN4A 5E5DA 1ICJA 5JF4A 1JYMA 4E9BA 2AI8A 4EOXP 3G5PA 5JF3A 4E9AA 1WS1A 1Y6HA 3O3JA 5HGWA 3M6PA 3OCAA 1BSKA 4NT8A 2AI7A 3STRP 2OKLA 1S17A 5JEYA 1LM4A 1BS8A 1ZY1A 5JF7A 3PN3A 5JF0A 1LRYA 1BSZA 1BSJA 1VEVA 3K6LA 1SZZA 5JEZA 2DEFA 1VEZA 2AI9A 5JF2A 2KMNA 5CVQA 5JF1A 5KOBA 3FWXA 2OS3A 3G5KA 1DEFA 2AIAA 3CMDA 5JF5A 1RQCA 1BS6A 1LQWA 2OS1A 5CVKA 1G2AA 1DFFA 4AL2A 1BS5A 2EW7A 1VEYA 3U7MA 5JF8A 5T8ZA 1Q1YA 1SV2A 2W3UA 4JE7A 1XEMA 3CPMA 3L87A 3U04A 5CY7A 3M6RA 3M6QA 3PN5A 1BS7A 4WXKA 5CP0A 5CXJA 4DR8A 3QU1A 3UWBA 1RL4A 1ZY0A 1WS0A 5JF6A 3G6NA 3SW8P 5JEXA 4AZ4A 3PN6A 2AIEP 1IX1A 3M6OA 2EW5A 1XEOA 3E3UA 2EW6A 4AL3A 5CVPA 1ZXZA 1LMHA 1N5NA 3SVJP 5CWYA 1LRUA 5CWXA 3U7NA 2W3TA 1LMEA 3U7KA 1G27A 1V3YA 3UWAA 4DR9A 3U7LA 1XENA 2OS0A 4JE6A 4WXLA 1BS4A 1LQYA 5CX0A 3PN2A 5J46A 5CY8A 4JE8A 5CPDA 5I2BA 1LM6A
chains in the Genus database with same CATH topology
3PN4A 5E5DA 1ICJA 5JF4A 1JYMA 4E9BA 2AI8A 4EOXP 3G5PA 5JF3A 4E9AA 1WS1A 1Y6HA 3O3JA 5HGWA 3M6PA 3OCAA 1BSKA 4NT8A 2AI7A 3STRP 2OKLA 1S17A 5JEYA 1LM4A 1BS8A 1ZY1A 5JF7A 3PN3A 5JF0A 1LRYA 1BSZA 1BSJA 1VEVA 3K6LA 1SZZA 5JEZA 2DEFA 1VEZA 2AI9A 5JF2A 2KMNA 5CVQA 5JF1A 5KOBA 3FWXA 2OS3A 3G5KA 1DEFA 2AIAA 3CMDA 5JF5A 1RQCA 1BS6A 1LQWA 2OS1A 5CVKA 1G2AA 1DFFA 4AL2A 1BS5A 2EW7A 1VEYA 3U7MA 5JF8A 5T8ZA 1Q1YA 1SV2A 2W3UA 4JE7A 1XEMA 3CPMA 3L87A 3U04A 5CY7A 3M6RA 3M6QA 3PN5A 1BS7A 4WXKA 5CP0A 5CXJA 4DR8A 3QU1A 3UWBA 1RL4A 1ZY0A 1WS0A 5JF6A 3G6NA 3SW8P 5JEXA 4AZ4A 3PN6A 2AIEP 1IX1A 3M6OA 2EW5A 1XEOA 3E3UA 2EW6A 4AL3A 5CVPA 1ZXZA 1LMHA 1N5NA 3SVJP 5CWYA 1LRUA 5CWXA 3U7NA 2W3TA 1LMEA 3U7KA 1G27A 1V3YA 3UWAA 4DR9A 3U7LA 1XENA 2OS0A 4JE6A 4WXLA 1BS4A 1LQYA 5CX0A 3PN2A 5J46A 5CY8A 4JE8A 5CPDA 5I2BA 1LM6A
chains in the Genus database with same CATH homology


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