5E5DA

Native structure of xoo1075, a peptide deformylase from xanthomonas oryzae pv. oryzae
Total Genus 46
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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
46
sequence length
170
structure length
170
Chain Sequence
MIRDIIRMGDKRLLRVAPQVTNLGSAELHALVSDMFETMGAAHGVGLAAPQIAVDLQLMVFGFEASERYPEAPAVPLTALANAQIEPLSDEMENGWEGCLSIPGLRAVIPRYRYIRYRGFAPDGSPIEREAEGFHARVVQHEYDHLVGRLYPSRIENFDTFGFDDVLSYD
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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 Native structure of Xoo1075, a peptide deformylase from Xanthomonas oryzae pv. oryzae
rcsb
source organism Xanthomonas oryzae pv. oryzae kacc10331
total genus 46
structure length 170
sequence length 170
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2015-10-08

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 5e5dA00
2OS3A 4DR9A 2OKLA 1S17A 1G27A 5JF7A 4JE6A 1LQYA 2AI9A 4WXLA 5JF3A 5CVQA 1BS8A 3UWAA 3QU1A 1BS4A 2AIEP 5CWYA 3PN6A 1SZZA 1BS6A 3G5PA 4AL2A 1XEOA 5JF5A 3STRP 3K6LA 1VEVA 5CP0A 1ZY0A 1BSJA 1IX1A 1LRYA 4JE8A 1BSZA 2AIAA 3FWXA 5CWXA 3U04A 2DEFA 5JF0A 4AZ4A 3OCAA 1Q1YA 1DEFA 1LM6A 3SW8P 1G2AA 1WS1A 5CPDA 5JF8A 3U7KA 3M6PA 2EW5A 4E9BA 1ZXZA 1LM4A 1N5NA 1XEMA 3O3JA 2EW7A 1XENA 2W3UA 5CVPA 5CX0A 4AL3A 5JEYA 5JEZA 3UWBA 1ZY1A 1ICJA 1LRUA 1V3YA 4DR8A 5E5DA 5JEXA 1LMHA 4E9AA 5CY7A 5JF6A 1Y6HA 2EW6A 5I2BA 1LMEA 3CMDA 2W3TA 4JE7A 5T8ZA 3SVJP 3G5KA 1BS5A 3M6QA 3M6RA 1RQCA 4WXKA 5J46A 3L87A 3E3UA 3PN2A 3U7LA 3PN3A 5JF4A 1LQWA 3U7MA 5KOBA 2AI8A 5JF1A 2KMNA 5CY8A 3M6OA 1RL4A 1BS7A 2OS1A 3CPMA 3U7NA 1JYMA 1DFFA 2OS0A 1BSKA 3G6NA 5JF2A 2AI7A 1SV2A 1VEZA 1WS0A 5HGWA 1VEYA 4EOXP 4NT8A 3PN5A 5CXJA 3PN4A 5CVKA
chains in the Genus database with same CATH superfamily
2OS3A 4DR9A 2OKLA 1S17A 1G27A 5JF7A 4JE6A 1LQYA 2AI9A 4WXLA 5JF3A 5CVQA 1BS8A 3UWAA 3QU1A 1BS4A 2AIEP 5CWYA 3PN6A 1SZZA 1BS6A 3G5PA 4AL2A 1XEOA 5JF5A 3STRP 3K6LA 1VEVA 5CP0A 1ZY0A 1BSJA 1IX1A 1LRYA 4JE8A 1BSZA 2AIAA 3FWXA 5CWXA 3U04A 2DEFA 5JF0A 4AZ4A 3OCAA 1Q1YA 1DEFA 1LM6A 3SW8P 1G2AA 1WS1A 5CPDA 5JF8A 3U7KA 3M6PA 2EW5A 4E9BA 1ZXZA 1LM4A 1N5NA 1XEMA 3O3JA 2EW7A 1XENA 2W3UA 5CVPA 5CX0A 4AL3A 5JEYA 5JEZA 3UWBA 1ZY1A 1ICJA 1LRUA 1V3YA 4DR8A 5E5DA 5JEXA 1LMHA 4E9AA 5CY7A 5JF6A 1Y6HA 2EW6A 5I2BA 1LMEA 3CMDA 2W3TA 4JE7A 5T8ZA 3SVJP 3G5KA 1BS5A 3M6QA 3M6RA 1RQCA 4WXKA 5J46A 3L87A 3E3UA 3PN2A 3U7LA 3PN3A 5JF4A 1LQWA 3U7MA 5KOBA 2AI8A 5JF1A 2KMNA 5CY8A 3M6OA 1RL4A 1BS7A 2OS1A 3CPMA 3U7NA 1JYMA 1DFFA 2OS0A 1BSKA 3G6NA 5JF2A 2AI7A 1SV2A 1VEZA 1WS0A 5HGWA 1VEYA 4EOXP 4NT8A 3PN5A 5CXJA 3PN4A 5CVKA
chains in the Genus database with same CATH topology
2OS3A 4DR9A 2OKLA 1S17A 1G27A 5JF7A 4JE6A 1LQYA 2AI9A 4WXLA 5JF3A 5CVQA 1BS8A 3UWAA 3QU1A 1BS4A 2AIEP 5CWYA 3PN6A 1SZZA 1BS6A 3G5PA 4AL2A 1XEOA 5JF5A 3STRP 3K6LA 1VEVA 5CP0A 1ZY0A 1BSJA 1IX1A 1LRYA 4JE8A 1BSZA 2AIAA 3FWXA 5CWXA 3U04A 2DEFA 5JF0A 4AZ4A 3OCAA 1Q1YA 1DEFA 1LM6A 3SW8P 1G2AA 1WS1A 5CPDA 5JF8A 3U7KA 3M6PA 2EW5A 4E9BA 1ZXZA 1LM4A 1N5NA 1XEMA 3O3JA 2EW7A 1XENA 2W3UA 5CVPA 5CX0A 4AL3A 5JEYA 5JEZA 3UWBA 1ZY1A 1ICJA 1LRUA 1V3YA 4DR8A 5E5DA 5JEXA 1LMHA 4E9AA 5CY7A 5JF6A 1Y6HA 2EW6A 5I2BA 1LMEA 3CMDA 2W3TA 4JE7A 5T8ZA 3SVJP 3G5KA 1BS5A 3M6QA 3M6RA 1RQCA 4WXKA 5J46A 3L87A 3E3UA 3PN2A 3U7LA 3PN3A 5JF4A 1LQWA 3U7MA 5KOBA 2AI8A 5JF1A 2KMNA 5CY8A 3M6OA 1RL4A 1BS7A 2OS1A 3CPMA 3U7NA 1JYMA 1DFFA 2OS0A 1BSKA 3G6NA 5JF2A 2AI7A 1SV2A 1VEZA 1WS0A 5HGWA 1VEYA 4EOXP 4NT8A 3PN5A 5CXJA 3PN4A 5CVKA
chains in the Genus database with same CATH homology


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