3O3JA

Crystal structure of arabidopsis thaliana peptide deformylase 1b (atpdf1b) in complex with inhibitor 6b
Total Genus 52

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
180
structure length
180
Chain Sequence
MEIVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELEALEKKYEEKTGLPSPERVEA
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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
EMPTYTI3 (91-94)TVIa1 (5-8)AH3 (149-170)TVIII2 (174-177)TIV1 (8-11)TI1 (9-12)TIV2 (10-13)O1 (51-53)3H2 (143-146)AH1 (23-39)TI2 (59-62)S1 (43-45)S2 (55-58)3H1 (46-49)TII1 (63-66)S5 (94-104)S6 (107-112)TI4 (113-116)AH2 (126-138)S3 (70-80)S7 (118-121)S4 (84-91)Updating...
connected with : NaN
molecule tags Hydrolase/hydrolase inhibitor
source organism Arabidopsis thaliana
publication title Trapping conformational states along ligand-binding dynamics of peptide deformylase: the impact of induced fit on enzyme catalysis
pubmed doi rcsb
molecule keywords Peptide deformylase 1B
total genus 52
structure length 180
sequence length 180
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2010-07-24
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.45.10 Alpha Beta Alpha-Beta Complex Peptide Deformylase Peptide deformylase 3o3jA00
5CY7A 5CVKA 1BSKA 3O3JA 1WS0A 1BSZA 1LMEA 3U7KA 1S17A 5JF2A 3PN3A 3PN5A 5JF6A 3PN2A 4E9BA 5JEXA 1LQYA 4AL2A 1BS7A 1Q1YA 1V3YA 3CMDA 3UWAA 5JF4A 1JYMA 1BS8A 1RQCA 3SVJP 5JEZA 1WS1A 1XENA 3G5KA 3STRP 3E3UA 5CP0A 1LRUA 2KMNA 1LM6A 1RL4A 2OKLA 5CY8A 4NT8A 2AI9A 3U7LA 1XEOA 1Y6HA 4DR8A 3PN6A 2EW7A 5KOBA 2EW5A 3FWXA 5I2BA 5JF8A 5CVQA 2AIAA 4AZ4A 4E9AA 1G27A 3G6NA 3CPMA 3G5PA 2DEFA 5JEYA 1ZY1A 1LRYA 3SW8P 5CX0A 2OS0A 1BS6A 1BS5A 3UWBA 5CWYA 5JF1A 4JE8A 3U04A 5CVPA 1BSJA 4WXLA 5JF3A 4AL3A 1N5NA 4JE6A 2W3TA 1ZXZA 4JE7A 1LQWA 3QU1A 1ZY0A 3M6OA 5HGWA 3M6RA 1BS4A 1ICJA 2EW6A 1DFFA 1SZZA 3K6LA 2AI8A 5E5DA 1LM4A 2AIEP 4DR9A 2W3UA 3L87A 1IX1A 1VEZA 3M6PA 5CWXA 5CPDA 1XEMA 1LMHA 3OCAA 1VEVA 1VEYA 5JF7A 1G2AA 3PN4A 5J46A 2OS3A 2AI7A 5JF0A 5T8ZA 4EOXP 4WXKA 1DEFA 1SV2A 3M6QA 3U7MA 5JF5A 3U7NA 5CXJA 2OS1A
chains in the Genus database with same CATH superfamily
5CY7A 5CVKA 1BSKA 3O3JA 1WS0A 1BSZA 1LMEA 3U7KA 1S17A 5JF2A 3PN3A 3PN5A 5JF6A 3PN2A 4E9BA 5JEXA 1LQYA 4AL2A 1BS7A 1Q1YA 1V3YA 3CMDA 3UWAA 5JF4A 1JYMA 1BS8A 1RQCA 3SVJP 5JEZA 1WS1A 1XENA 3G5KA 3STRP 3E3UA 5CP0A 1LRUA 2KMNA 1LM6A 1RL4A 2OKLA 5CY8A 4NT8A 2AI9A 3U7LA 1XEOA 1Y6HA 4DR8A 3PN6A 2EW7A 5KOBA 2EW5A 3FWXA 5I2BA 5JF8A 5CVQA 2AIAA 4AZ4A 4E9AA 1G27A 3G6NA 3CPMA 3G5PA 2DEFA 5JEYA 1ZY1A 1LRYA 3SW8P 5CX0A 2OS0A 1BS6A 1BS5A 3UWBA 5CWYA 5JF1A 4JE8A 3U04A 5CVPA 1BSJA 4WXLA 5JF3A 4AL3A 1N5NA 4JE6A 2W3TA 1ZXZA 4JE7A 1LQWA 3QU1A 1ZY0A 3M6OA 5HGWA 3M6RA 1BS4A 1ICJA 2EW6A 1DFFA 1SZZA 3K6LA 2AI8A 5E5DA 1LM4A 2AIEP 4DR9A 2W3UA 3L87A 1IX1A 1VEZA 3M6PA 5CWXA 5CPDA 1XEMA 1LMHA 3OCAA 1VEVA 1VEYA 5JF7A 1G2AA 3PN4A 5J46A 2OS3A 2AI7A 5JF0A 5T8ZA 4EOXP 4WXKA 1DEFA 1SV2A 3M6QA 3U7MA 5JF5A 3U7NA 5CXJA 2OS1A
chains in the Genus database with same CATH topology
5CY7A 5CVKA 1BSKA 3O3JA 1WS0A 1BSZA 1LMEA 3U7KA 1S17A 5JF2A 3PN3A 3PN5A 5JF6A 3PN2A 4E9BA 5JEXA 1LQYA 4AL2A 1BS7A 1Q1YA 1V3YA 3CMDA 3UWAA 5JF4A 1JYMA 1BS8A 1RQCA 3SVJP 5JEZA 1WS1A 1XENA 3G5KA 3STRP 3E3UA 5CP0A 1LRUA 2KMNA 1LM6A 1RL4A 2OKLA 5CY8A 4NT8A 2AI9A 3U7LA 1XEOA 1Y6HA 4DR8A 3PN6A 2EW7A 5KOBA 2EW5A 3FWXA 5I2BA 5JF8A 5CVQA 2AIAA 4AZ4A 4E9AA 1G27A 3G6NA 3CPMA 3G5PA 2DEFA 5JEYA 1ZY1A 1LRYA 3SW8P 5CX0A 2OS0A 1BS6A 1BS5A 3UWBA 5CWYA 5JF1A 4JE8A 3U04A 5CVPA 1BSJA 4WXLA 5JF3A 4AL3A 1N5NA 4JE6A 2W3TA 1ZXZA 4JE7A 1LQWA 3QU1A 1ZY0A 3M6OA 5HGWA 3M6RA 1BS4A 1ICJA 2EW6A 1DFFA 1SZZA 3K6LA 2AI8A 5E5DA 1LM4A 2AIEP 4DR9A 2W3UA 3L87A 1IX1A 1VEZA 3M6PA 5CWXA 5CPDA 1XEMA 1LMHA 3OCAA 1VEVA 1VEYA 5JF7A 1G2AA 3PN4A 5J46A 2OS3A 2AI7A 5JF0A 5T8ZA 4EOXP 4WXKA 1DEFA 1SV2A 3M6QA 3U7MA 5JF5A 3U7NA 5CXJA 2OS1A
chains in the Genus database with same CATH homology


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