1XEMA

High resolution crystal structure of escherichia coli zinc- peptide deformylase bound to formate
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
164
structure length
164
Chain Sequence
SVLQVLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENRDERLVLINPELLEKSGETGIEEGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDRL
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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 Structures of E. coli peptide deformylase bound to formate: insight into the preference for Fe2+ over Zn2+ as the active site metal
pubmed doi rcsb
total genus 46
structure length 164
sequence length 164
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2004-09-10

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 1xemA00
4JE6A 3PN3A 1VEVA 5JF8A 1G27A 3PN5A 5HGWA 5KOBA 1BSZA 4AZ4A 5CWYA 3PN4A 1XENA 2W3TA 5JF5A 2AIAA 4WXKA 5CX0A 1ZY1A 1ZXZA 2W3UA 3M6QA 1LRYA 3G5PA 5JF4A 3UWBA 4WXLA 3L87A 5CP0A 1LMHA 3CPMA 1DFFA 5T8ZA 1BS4A 2DEFA 5JEXA 1LRUA 1VEYA 3G6NA 1ZY0A 1BSKA 3PN2A 5JF1A 5CVKA 1G2AA 2KMNA 3U7KA 1Q1YA 5CY7A 1RL4A 5E5DA 1WS1A 3UWAA 3OCAA 4E9BA 2OKLA 1S17A 1XEMA 1BS5A 5CVQA 4AL2A 1ICJA 3M6OA 1LM6A 1LQYA 5J46A 4JE8A 3PN6A 2OS0A 1N5NA 3M6PA 3U04A 5CXJA 3SW8P 4DR8A 1BSJA 3K6LA 3U7LA 3QU1A 1IX1A 3CMDA 3E3UA 3M6RA 5JF3A 1LQWA 5CVPA 5JF2A 2EW5A 1LMEA 4AL3A 5JEZA 1LM4A 4NT8A 1XEOA 4DR9A 5JF0A 5CY8A 2AI9A 3G5KA 1DEFA 1JYMA 2AI8A 2AI7A 1SV2A 2EW6A 3FWXA 5JF6A 1VEZA 1BS8A 1V3YA 3STRP 4EOXP 3U7MA 5CWXA 1BS7A 1SZZA 1RQCA 1BS6A 2AIEP 4JE7A 4E9AA 2OS1A 3SVJP 5I2BA 3O3JA 2EW7A 5JF7A 1WS0A 1Y6HA 2OS3A 5JEYA 5CPDA 3U7NA
chains in the Genus database with same CATH superfamily
4JE6A 3PN3A 1VEVA 5JF8A 1G27A 3PN5A 5HGWA 5KOBA 1BSZA 4AZ4A 5CWYA 3PN4A 1XENA 2W3TA 5JF5A 2AIAA 4WXKA 5CX0A 1ZY1A 1ZXZA 2W3UA 3M6QA 1LRYA 3G5PA 5JF4A 3UWBA 4WXLA 3L87A 5CP0A 1LMHA 3CPMA 1DFFA 5T8ZA 1BS4A 2DEFA 5JEXA 1LRUA 1VEYA 3G6NA 1ZY0A 1BSKA 3PN2A 5JF1A 5CVKA 1G2AA 2KMNA 3U7KA 1Q1YA 5CY7A 1RL4A 5E5DA 1WS1A 3UWAA 3OCAA 4E9BA 2OKLA 1S17A 1XEMA 1BS5A 5CVQA 4AL2A 1ICJA 3M6OA 1LM6A 1LQYA 5J46A 4JE8A 3PN6A 2OS0A 1N5NA 3M6PA 3U04A 5CXJA 3SW8P 4DR8A 1BSJA 3K6LA 3U7LA 3QU1A 1IX1A 3CMDA 3E3UA 3M6RA 5JF3A 1LQWA 5CVPA 5JF2A 2EW5A 1LMEA 4AL3A 5JEZA 1LM4A 4NT8A 1XEOA 4DR9A 5JF0A 5CY8A 2AI9A 3G5KA 1DEFA 1JYMA 2AI8A 2AI7A 1SV2A 2EW6A 3FWXA 5JF6A 1VEZA 1BS8A 1V3YA 3STRP 4EOXP 3U7MA 5CWXA 1BS7A 1SZZA 1RQCA 1BS6A 2AIEP 4JE7A 4E9AA 2OS1A 3SVJP 5I2BA 3O3JA 2EW7A 5JF7A 1WS0A 1Y6HA 2OS3A 5JEYA 5CPDA 3U7NA
chains in the Genus database with same CATH topology
4JE6A 3PN3A 1VEVA 5JF8A 1G27A 3PN5A 5HGWA 5KOBA 1BSZA 4AZ4A 5CWYA 3PN4A 1XENA 2W3TA 5JF5A 2AIAA 4WXKA 5CX0A 1ZY1A 1ZXZA 2W3UA 3M6QA 1LRYA 3G5PA 5JF4A 3UWBA 4WXLA 3L87A 5CP0A 1LMHA 3CPMA 1DFFA 5T8ZA 1BS4A 2DEFA 5JEXA 1LRUA 1VEYA 3G6NA 1ZY0A 1BSKA 3PN2A 5JF1A 5CVKA 1G2AA 2KMNA 3U7KA 1Q1YA 5CY7A 1RL4A 5E5DA 1WS1A 3UWAA 3OCAA 4E9BA 2OKLA 1S17A 1XEMA 1BS5A 5CVQA 4AL2A 1ICJA 3M6OA 1LM6A 1LQYA 5J46A 4JE8A 3PN6A 2OS0A 1N5NA 3M6PA 3U04A 5CXJA 3SW8P 4DR8A 1BSJA 3K6LA 3U7LA 3QU1A 1IX1A 3CMDA 3E3UA 3M6RA 5JF3A 1LQWA 5CVPA 5JF2A 2EW5A 1LMEA 4AL3A 5JEZA 1LM4A 4NT8A 1XEOA 4DR9A 5JF0A 5CY8A 2AI9A 3G5KA 1DEFA 1JYMA 2AI8A 2AI7A 1SV2A 2EW6A 3FWXA 5JF6A 1VEZA 1BS8A 1V3YA 3STRP 4EOXP 3U7MA 5CWXA 1BS7A 1SZZA 1RQCA 1BS6A 2AIEP 4JE7A 4E9AA 2OS1A 3SVJP 5I2BA 3O3JA 2EW7A 5JF7A 1WS0A 1Y6HA 2OS3A 5JEYA 5CPDA 3U7NA
chains in the Genus database with same CATH homology


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