4JE7A

Crystal structure of a human-like mitochondrial peptide deformylase in complex with actinonin
Total Genus 52
2040608010012014016018001020304050
Genus TraceResidueGenus

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
52
sequence length
193
structure length
193
Chain Sequence
DLPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPCVGLAAPQIGVPLRIIVLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKALFFEGCESVDGFRAAVERYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVDKMVPRTFRTVDNLDLPLAEGCPKLGSHHH

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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connected with : NaN
molecule tags Hydrolase/hydrolase inhibitor
source organism Arabidopsis thaliana
publication title Understanding the highly efficient catalysis of prokaryotic peptide deformylases by shedding light on the determinants specifying the low activity of the human counterpart.
pubmed doi rcsb
molecule keywords Peptide deformylase 1A, chloroplastic/mitochondrial
total genus 52
structure length 193
sequence length 193
chains with identical sequence B
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2013-02-26

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 4je7A00
1ICJA 1SV2A 1LQWA 1BS6A 4JE6A 5JF3A 5HGWA 1LM6A 3G6NA 4EOXP 2AI7A 1BSZA 3FWXA 5JF1A 1V3YA 3M6RA 3PN6A 3SW8P 2OS1A 3M6OA 1RL4A 1S17A 5JF2A 2W3UA 5CY8A 1G27A 3G5KA 1VEVA 1DFFA 5CXJA 2AI8A 1XEMA 5JEXA 5JEZA 5CPDA 1DEFA 3CMDA 3SVJP 4AZ4A 5I2BA 1WS1A 3PN3A 1IX1A 3U7LA 5CWYA 1G2AA 4AL2A 1LRUA 1LMEA 1LQYA 1SZZA 2AIAA 5JEYA 1Q1YA 3G5PA 3UWAA 3PN4A 5CWXA 5JF6A 5JF8A 4WXLA 2EW6A 4AL3A 2AI9A 5CY7A 1ZXZA 2DEFA 3U7MA 3PN2A 3M6PA 1LRYA 1XEOA 5E5DA 5CVPA 5CVKA 2W3TA 1JYMA 3STRP 3UWBA 2OS3A 3QU1A 1VEZA 5CP0A 1BS7A 3E3UA 3PN5A 5JF4A 3U7NA 4JE8A 2AIEP 3CPMA 5J46A 4E9BA 1VEYA 3K6LA 4DR8A 1BS8A 1LM4A 5JF5A 5KOBA 5T8ZA 2OS0A 1XENA 3O3JA 1N5NA 4E9AA 1BSKA 2OKLA 3L87A 3U04A 3M6QA 1ZY1A 2KMNA 1LMHA 5CX0A 2EW7A 4NT8A 4WXKA 1BS4A 3U7KA 5JF0A 4JE7A 1RQCA 1Y6HA 3OCAA 1BS5A 2EW5A 1ZY0A 4DR9A 1WS0A 5JF7A 1BSJA 5CVQA
chains in the Genus database with same CATH superfamily
1ICJA 1SV2A 1LQWA 1BS6A 4JE6A 5JF3A 5HGWA 1LM6A 3G6NA 4EOXP 2AI7A 1BSZA 3FWXA 5JF1A 1V3YA 3M6RA 3PN6A 3SW8P 2OS1A 3M6OA 1RL4A 1S17A 5JF2A 2W3UA 5CY8A 1G27A 3G5KA 1VEVA 1DFFA 5CXJA 2AI8A 1XEMA 5JEXA 5JEZA 5CPDA 1DEFA 3CMDA 3SVJP 4AZ4A 5I2BA 1WS1A 3PN3A 1IX1A 3U7LA 5CWYA 1G2AA 4AL2A 1LRUA 1LMEA 1LQYA 1SZZA 2AIAA 5JEYA 1Q1YA 3G5PA 3UWAA 3PN4A 5CWXA 5JF6A 5JF8A 4WXLA 2EW6A 4AL3A 2AI9A 5CY7A 1ZXZA 2DEFA 3U7MA 3PN2A 3M6PA 1LRYA 1XEOA 5E5DA 5CVPA 5CVKA 2W3TA 1JYMA 3STRP 3UWBA 2OS3A 3QU1A 1VEZA 5CP0A 1BS7A 3E3UA 3PN5A 5JF4A 3U7NA 4JE8A 2AIEP 3CPMA 5J46A 4E9BA 1VEYA 3K6LA 4DR8A 1BS8A 1LM4A 5JF5A 5KOBA 5T8ZA 2OS0A 1XENA 3O3JA 1N5NA 4E9AA 1BSKA 2OKLA 3L87A 3U04A 3M6QA 1ZY1A 2KMNA 1LMHA 5CX0A 2EW7A 4NT8A 4WXKA 1BS4A 3U7KA 5JF0A 4JE7A 1RQCA 1Y6HA 3OCAA 1BS5A 2EW5A 1ZY0A 4DR9A 1WS0A 5JF7A 1BSJA 5CVQA
chains in the Genus database with same CATH topology
1ICJA 1SV2A 1LQWA 1BS6A 4JE6A 5JF3A 5HGWA 1LM6A 3G6NA 4EOXP 2AI7A 1BSZA 3FWXA 5JF1A 1V3YA 3M6RA 3PN6A 3SW8P 2OS1A 3M6OA 1RL4A 1S17A 5JF2A 2W3UA 5CY8A 1G27A 3G5KA 1VEVA 1DFFA 5CXJA 2AI8A 1XEMA 5JEXA 5JEZA 5CPDA 1DEFA 3CMDA 3SVJP 4AZ4A 5I2BA 1WS1A 3PN3A 1IX1A 3U7LA 5CWYA 1G2AA 4AL2A 1LRUA 1LMEA 1LQYA 1SZZA 2AIAA 5JEYA 1Q1YA 3G5PA 3UWAA 3PN4A 5CWXA 5JF6A 5JF8A 4WXLA 2EW6A 4AL3A 2AI9A 5CY7A 1ZXZA 2DEFA 3U7MA 3PN2A 3M6PA 1LRYA 1XEOA 5E5DA 5CVPA 5CVKA 2W3TA 1JYMA 3STRP 3UWBA 2OS3A 3QU1A 1VEZA 5CP0A 1BS7A 3E3UA 3PN5A 5JF4A 3U7NA 4JE8A 2AIEP 3CPMA 5J46A 4E9BA 1VEYA 3K6LA 4DR8A 1BS8A 1LM4A 5JF5A 5KOBA 5T8ZA 2OS0A 1XENA 3O3JA 1N5NA 4E9AA 1BSKA 2OKLA 3L87A 3U04A 3M6QA 1ZY1A 2KMNA 1LMHA 5CX0A 2EW7A 4NT8A 4WXKA 1BS4A 3U7KA 5JF0A 4JE7A 1RQCA 1Y6HA 3OCAA 1BS5A 2EW5A 1ZY0A 4DR9A 1WS0A 5JF7A 1BSJA 5CVQA
chains in the Genus database with same CATH homology


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