1XEMA

High resolution crystal structure of escherichia coli zinc- peptide deformylase bound to formate
Total Genus 46
Loading diagram...

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
Loading diagram...

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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...