1OCKA

The crystal structure of malonamidase e2 from bradyrhizobium japonicum
Total Genus 153
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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
153
sequence length
412
structure length
412
Chain Sequence
MISLADLQRRIETGELSPNAAIAQSHAAIEAREKEVHAFVRHDKSARAQASGPLRGIAVGIKDIIDTANMPTEMGSEIYRGWQPRSDAPVVMMLKRAGATIIGKTTTTAFASRDPTATLNPHNTGHSPGGSSSGSAAAVGAGMIPLALGTQTGGSVIRPAAYCGTAAIKPSFRMLPTVGVKCYSWALDTVGLFGARAEDLARGLLAMTGRSEFSGIVPAKAPRIGVVRQEFAGAVEPAAEQGLQAAIKAAERAGASVQAIDLPEAVHEAWRIHPIIQDFEAHRALAWEFSEHHDEIAPMLRASLDATVGLTPKEYDEARRIGRRGRRELGEVFEGVDVLLTYSAPGTAPAKALASTGDPRYNRLWTLMGNPCVNVPVLKVGGLPIGVQVIARFGNDAHALATAWFLEDALAK
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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 Amidase
molecule keywords MALONAMIDASE E2
publication title Characterization of a Novel Ser-Cisser-Lys Catalytic Triad in Comparison with the Classical Ser-His-Asp Triad.
pubmed doi rcsb
source organism Bradyrhizobium japonicum
total genus 153
structure length 412
sequence length 412
chains with identical sequence B
ec nomenclature
pdb deposition date 2003-02-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01425 Amidase Amidase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.1300.10 Alpha Beta Alpha-Beta Complex Amidase signature (AS) enzymes Amidase signature (AS) domain 1ockA00
5EWQA 2DQNA 4WJ3A 5AC3A 4GYRA 1MT5A 2VYAA 4GYSA 4ISSA 3H0MA 1OCHA 3OJ8A 3QJ9A 4HBPA 4ISTA 3AL0A 3KFUE 2DF4A 1OBKA 2WJ1A 4YJ6A 2G5HA 4N0IA 2WJ2A 3IP4A 2DC0A 3QKVA 3QK5A 3K83A 3K7FA 3A2QA 3LJ6A 1O9PA 3A1KA 1M22A 1OCLA 3PR0A 4DO3A 1O9NA 1OCMA 3H0LA 1OBIA 2GI3A 3H0RA 4CP8A 4J5PA 1OCKA 3A2PA 3PPMA 1OBJA 1O9OA 2G5IA 4YJIA 3A1IA 2WAPA 3QJ8A 1M21A 1OBLA 3LJ7A 2F2AA 4N0HA 1O9QA 3K84A
chains in the Genus database with same CATH superfamily
5EWQA 2DQNA 4WJ3A 5AC3A 4GYRA 1MT5A 2VYAA 4GYSA 4ISSA 3H0MA 1OCHA 3OJ8A 3QJ9A 4HBPA 4ISTA 3AL0A 3KFUE 2DF4A 1OBKA 2WJ1A 4YJ6A 2G5HA 4N0IA 2WJ2A 3IP4A 2DC0A 3QKVA 3QK5A 3K83A 3K7FA 3A2QA 3LJ6A 1O9PA 3A1KA 1M22A 1OCLA 3PR0A 4DO3A 1O9NA 1OCMA 3H0LA 1OBIA 2GI3A 3H0RA 4CP8A 4J5PA 1OCKA 3A2PA 3PPMA 1OBJA 1O9OA 2G5IA 4YJIA 3A1IA 2WAPA 3QJ8A 1M21A 1OBLA 3LJ7A 2F2AA 4N0HA 1O9QA 3K84A
chains in the Genus database with same CATH topology
5EWQA 2DQNA 4WJ3A 5AC3A 4GYRA 1MT5A 2VYAA 4GYSA 4ISSA 3H0MA 1OCHA 3OJ8A 3QJ9A 4HBPA 4ISTA 3AL0A 3KFUE 2DF4A 1OBKA 2WJ1A 4YJ6A 2G5HA 4N0IA 2WJ2A 3IP4A 2DC0A 3QKVA 3QK5A 3K83A 3K7FA 3A2QA 3LJ6A 1O9PA 3A1KA 1M22A 1OCLA 3PR0A 4DO3A 1O9NA 1OCMA 3H0LA 1OBIA 2GI3A 3H0RA 4CP8A 4J5PA 1OCKA 3A2PA 3PPMA 1OBJA 1O9OA 2G5IA 4YJIA 3A1IA 2WAPA 3QJ8A 1M21A 1OBLA 3LJ7A 2F2AA 4N0HA 1O9QA 3K84A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5EWQ A;  2DQN A;  4WJ3 A;  5AC3 A;  4GYR A;  1MT5 A;  2VYA A;  4GYS A;  4ISS A;  3H0M A;  1OCH A;  3OJ8 A;  3QJ9 A;  4HBP A;  4IST A;  3AL0 A;  3KFU E;  2DF4 A;  1OBK A;  2WJ1 A;  4YJ6 A;  2G5H A;  4N0I A;  2WJ2 A;  3IP4 A;  2DC0 A;  3QKV A;  3QK5 A;  3K83 A;  3K7F A;  3A2Q A;  3LJ6 A;  1O9P A;  3A1K A;  1M22 A;  1OCL A;  3PR0 A;  4DO3 A;  1O9N A;  1OCM A;  3H0L A;  1OBI A;  2GI3 A;  3H0R A;  4CP8 A;  4J5P A;  1OCK A;  3A2P A;  3PPM A;  1OBJ A;  1O9O A;  2G5I A;  4YJI A;  3A1I A;  2WAP A;  3QJ8 A;  1M21 A;  1OBL A;  3LJ7 A;  2F2A A;  4N0H A;  1O9Q A;  3K84 A; 
#chains in the Genus database with same CATH topology
 5EWQ A;  2DQN A;  4WJ3 A;  5AC3 A;  4GYR A;  1MT5 A;  2VYA A;  4GYS A;  4ISS A;  3H0M A;  1OCH A;  3OJ8 A;  3QJ9 A;  4HBP A;  4IST A;  3AL0 A;  3KFU E;  2DF4 A;  1OBK A;  2WJ1 A;  4YJ6 A;  2G5H A;  4N0I A;  2WJ2 A;  3IP4 A;  2DC0 A;  3QKV A;  3QK5 A;  3K83 A;  3K7F A;  3A2Q A;  3LJ6 A;  1O9P A;  3A1K A;  1M22 A;  1OCL A;  3PR0 A;  4DO3 A;  1O9N A;  1OCM A;  3H0L A;  1OBI A;  2GI3 A;  3H0R A;  4CP8 A;  4J5P A;  1OCK A;  3A2P A;  3PPM A;  1OBJ A;  1O9O A;  2G5I A;  4YJI A;  3A1I A;  2WAP A;  3QJ8 A;  1M21 A;  1OBL A;  3LJ7 A;  2F2A A;  4N0H A;  1O9Q A;  3K84 A; 
#chains in the Genus database with same CATH homology
 5EWQ A;  2DQN A;  4WJ3 A;  5AC3 A;  4GYR A;  1MT5 A;  2VYA A;  4GYS A;  4ISS A;  3H0M A;  1OCH A;  3OJ8 A;  3QJ9 A;  4HBP A;  4IST A;  3AL0 A;  3KFU E;  2DF4 A;  1OBK A;  2WJ1 A;  4YJ6 A;  2G5H A;  4N0I A;  2WJ2 A;  3IP4 A;  2DC0 A;  3QKV A;  3QK5 A;  3K83 A;  3K7F A;  3A2Q A;  3LJ6 A;  1O9P A;  3A1K A;  1M22 A;  1OCL A;  3PR0 A;  4DO3 A;  1O9N A;  1OCM A;  3H0L A;  1OBI A;  2GI3 A;  3H0R A;  4CP8 A;  4J5P A;  1OCK A;  3A2P A;  3PPM A;  1OBJ A;  1O9O A;  2G5I A;  4YJI A;  3A1I A;  2WAP A;  3QJ8 A;  1M21 A;  1OBL A;  3LJ7 A;  2F2A A;  4N0H A;  1O9Q A;  3K84 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)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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