4JE7A

Crystal structure of a human-like mitochondrial peptide deformylase in complex with actinonin
Total Genus 52
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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
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
3H3 (52-55)EMPTYTI2 (111-114)TIV1 (8-11)S3 (87-99)3H2 (23-25)TI1 (25-28)AH1 (29-45)S2 (61-66)S1 (49-51)O2 (59-61)O1 (57-59)AH4 (145-159)AH3 (76-82)TVIII2 (124-127)S7 (138-144)S4 (104-111)S5 (114-124)S8 (173-174)TII2 (168-171)3H4 (163-165)3H5 (175-177)TI4 (177-180)TII3 (183-186)TI3 (133-136)AH2 (68-72)S9 (190-191)S6 (126-132)3H1 (12-14)Updating...
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
3QU1A 3SW8P 1BS5A 3K6LA 1LRYA 3PN2A 2OS0A 2W3UA 2EW7A 3G5PA 1BSJA 5CVKA 3CPMA 5JF2A 1LMEA 5JF1A 5T8ZA 5JF3A 1BSZA 4DR9A 2AI9A 5CWXA 5JEZA 1BS8A 1LQWA 3G6NA 3CMDA 5CY8A 3U7LA 3PN4A 5KOBA 5CWYA 5JF7A 1DFFA 2OS3A 5JEXA 1G27A 3M6PA 1XENA 1ZY1A 1SV2A 1BS7A 5J46A 3U7NA 1S17A 1LQYA 2AI8A 5CXJA 4JE7A 4AL3A 3U04A 1WS1A 4JE8A 1BS4A 3M6QA 4JE6A 1VEYA 3G5KA 1SZZA 3L87A 3PN6A 3O3JA 5CVQA 3U7MA 5CVPA 2DEFA 4EOXP 1XEOA 3U7KA 2AI7A 5JF0A 5I2BA 5JF5A 5JF6A 3M6RA 4DR8A 2AIAA 3OCAA 1G2AA 3SVJP 1RQCA 4AL2A 2EW5A 2OKLA 5JF4A 1BSKA 3STRP 1N5NA 1XEMA 5HGWA 1BS6A 1ZXZA 1VEVA 4E9BA 3PN5A 1LRUA 3UWBA 3UWAA 1RL4A 5CPDA 4WXLA 2W3TA 2KMNA 5CX0A 5JF8A 1LM4A 3M6OA 4WXKA 2AIEP 1Y6HA 1ZY0A 2OS1A 1LMHA 1VEZA 3FWXA 4NT8A 1JYMA 1WS0A 2EW6A 3E3UA 1LM6A 4AZ4A 5CY7A 1IX1A 1V3YA 1Q1YA 5CP0A 4E9AA 3PN3A 1DEFA 5E5DA 5JEYA 1ICJA
chains in the Genus database with same CATH superfamily
3QU1A 3SW8P 1BS5A 3K6LA 1LRYA 3PN2A 2OS0A 2W3UA 2EW7A 3G5PA 1BSJA 5CVKA 3CPMA 5JF2A 1LMEA 5JF1A 5T8ZA 5JF3A 1BSZA 4DR9A 2AI9A 5CWXA 5JEZA 1BS8A 1LQWA 3G6NA 3CMDA 5CY8A 3U7LA 3PN4A 5KOBA 5CWYA 5JF7A 1DFFA 2OS3A 5JEXA 1G27A 3M6PA 1XENA 1ZY1A 1SV2A 1BS7A 5J46A 3U7NA 1S17A 1LQYA 2AI8A 5CXJA 4JE7A 4AL3A 3U04A 1WS1A 4JE8A 1BS4A 3M6QA 4JE6A 1VEYA 3G5KA 1SZZA 3L87A 3PN6A 3O3JA 5CVQA 3U7MA 5CVPA 2DEFA 4EOXP 1XEOA 3U7KA 2AI7A 5JF0A 5I2BA 5JF5A 5JF6A 3M6RA 4DR8A 2AIAA 3OCAA 1G2AA 3SVJP 1RQCA 4AL2A 2EW5A 2OKLA 5JF4A 1BSKA 3STRP 1N5NA 1XEMA 5HGWA 1BS6A 1ZXZA 1VEVA 4E9BA 3PN5A 1LRUA 3UWBA 3UWAA 1RL4A 5CPDA 4WXLA 2W3TA 2KMNA 5CX0A 5JF8A 1LM4A 3M6OA 4WXKA 2AIEP 1Y6HA 1ZY0A 2OS1A 1LMHA 1VEZA 3FWXA 4NT8A 1JYMA 1WS0A 2EW6A 3E3UA 1LM6A 4AZ4A 5CY7A 1IX1A 1V3YA 1Q1YA 5CP0A 4E9AA 3PN3A 1DEFA 5E5DA 5JEYA 1ICJA
chains in the Genus database with same CATH topology
3QU1A 3SW8P 1BS5A 3K6LA 1LRYA 3PN2A 2OS0A 2W3UA 2EW7A 3G5PA 1BSJA 5CVKA 3CPMA 5JF2A 1LMEA 5JF1A 5T8ZA 5JF3A 1BSZA 4DR9A 2AI9A 5CWXA 5JEZA 1BS8A 1LQWA 3G6NA 3CMDA 5CY8A 3U7LA 3PN4A 5KOBA 5CWYA 5JF7A 1DFFA 2OS3A 5JEXA 1G27A 3M6PA 1XENA 1ZY1A 1SV2A 1BS7A 5J46A 3U7NA 1S17A 1LQYA 2AI8A 5CXJA 4JE7A 4AL3A 3U04A 1WS1A 4JE8A 1BS4A 3M6QA 4JE6A 1VEYA 3G5KA 1SZZA 3L87A 3PN6A 3O3JA 5CVQA 3U7MA 5CVPA 2DEFA 4EOXP 1XEOA 3U7KA 2AI7A 5JF0A 5I2BA 5JF5A 5JF6A 3M6RA 4DR8A 2AIAA 3OCAA 1G2AA 3SVJP 1RQCA 4AL2A 2EW5A 2OKLA 5JF4A 1BSKA 3STRP 1N5NA 1XEMA 5HGWA 1BS6A 1ZXZA 1VEVA 4E9BA 3PN5A 1LRUA 3UWBA 3UWAA 1RL4A 5CPDA 4WXLA 2W3TA 2KMNA 5CX0A 5JF8A 1LM4A 3M6OA 4WXKA 2AIEP 1Y6HA 1ZY0A 2OS1A 1LMHA 1VEZA 3FWXA 4NT8A 1JYMA 1WS0A 2EW6A 3E3UA 1LM6A 4AZ4A 5CY7A 1IX1A 1V3YA 1Q1YA 5CP0A 4E9AA 3PN3A 1DEFA 5E5DA 5JEYA 1ICJA
chains in the Genus database with same CATH homology


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