SMTL ID : 4nq3.1

Crystal structure of cyanuic acid hydrolase from A. caulinodans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-tetramer

Ligands

6 x BR8: BARBITURIC ACID(Non-covalent)

BR8.1: 14 residues within 4Å: Chain A: K.40, G.45, R.52, S.79, G.80, K.156, R.188, C.225, S.226, S.227, K.285, R.314, S.333, G.334 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.40, A:R.52, A:G.80, A:G.80, A:R.188, A:S.227, A:S.227, A:R.314, A:G.334 BR8.8: 6 residues within 4Å: Chain A: A.176, T.177, S.178, K.182 Chain D: K.182 Ligands: SO4.28 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:K.182, D:K.182, A:T.177, A:S.178 BR8.11: 13 residues within 4Å: Chain B: K.40, G.45, R.52, S.79, G.80, R.188, C.225, S.226, S.227, K.285, R.314, S.333, G.334 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.52, B:G.80, B:G.80, B:R.188, B:S.227, B:S.227, B:R.314, B:G.334 BR8.17: 14 residues within 4Å: Chain C: K.40, G.45, R.52, S.79, G.80, K.156, R.188, C.225, S.226, S.227, K.285, R.314, S.333, G.334 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:K.40, C:R.52, C:G.80, C:G.80, C:R.188, C:S.227, C:S.227, C:R.314, C:G.334 BR8.24: 6 residues within 4Å: Chain B: K.182 Chain C: A.176, T.177, S.178, K.182 Ligands: SO4.12 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:K.182, B:K.182, C:S.178 Water bridges: C:D.179 BR8.27: 13 residues within 4Å: Chain D: K.40, G.45, R.52, S.79, G.80, R.188, C.225, S.226, S.227, K.285, R.314, S.333, G.334 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:R.52, D:G.80, D:G.80, D:R.188, D:S.227, D:S.227, D:R.314, D:G.334

20 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: R.95, R.111 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: M.125, R.129, D.209 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: A.112, H.113, R.137 Ligand excluded by PLIP SO4.5: 6 residues within 4Å: Chain A: D.179, T.180, L.181 Chain D: L.302, D.304, P.309 Ligand excluded by PLIP SO4.6: 4 residues within 4Å: Chain A: A.12 Chain C: T.161, M.163, R.164 Ligand excluded by PLIP SO4.7: 5 residues within 4Å: Chain A: P.2, A.141, A.142, G.143, W.245 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain B: T.177, S.178, D.179 Chain C: K.182 Ligands: BR8.24 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain A: K.297 Chain B: R.8, A.10, E.278, E.329 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain B: M.125, R.129 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain B: R.293, I.294, R.295, G.296 Ligand excluded by PLIP SO4.18: 2 residues within 4Å: Chain C: R.95, R.111 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain C: M.125, R.129, D.209 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain C: A.112, H.113, R.137 Ligand excluded by PLIP SO4.21: 6 residues within 4Å: Chain B: L.302, D.304, P.309 Chain C: D.179, T.180, L.181 Ligand excluded by PLIP SO4.22: 4 residues within 4Å: Chain A: T.161, M.163, R.164 Chain C: A.12 Ligand excluded by PLIP SO4.23: 5 residues within 4Å: Chain C: P.2, A.141, A.142, G.143, W.245 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain A: K.182 Chain D: T.177, S.178, D.179 Ligands: BR8.8 Ligand excluded by PLIP SO4.29: 5 residues within 4Å: Chain C: K.297 Chain D: R.8, A.10, E.278, E.329 Ligand excluded by PLIP SO4.30: 2 residues within 4Å: Chain D: M.125, R.129 Ligand excluded by PLIP SO4.31: 4 residues within 4Å: Chain D: R.293, I.294, R.295, G.296 Ligand excluded by PLIP

6 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 6 residues within 4Å: Chain A: E.287, G.336, Q.339, G.340, P.341, G.344 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.287, A:G.336, A:Q.339, A:P.341, A:G.344 MG.10: 3 residues within 4Å: Chain A: R.8, A.10, E.329 No protein-ligand interaction detected (PLIP) MG.16: 6 residues within 4Å: Chain B: E.287, G.336, Q.339, G.340, P.341, G.344 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.287, B:G.336, B:Q.339, B:P.341, B:G.344 MG.25: 6 residues within 4Å: Chain C: E.287, G.336, Q.339, G.340, P.341, G.344 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.287, C:G.336, C:Q.339, C:P.341, C:G.344 MG.26: 3 residues within 4Å: Chain C: R.8, A.10, E.329 No protein-ligand interaction detected (PLIP) MG.32: 6 residues within 4Å: Chain D: E.287, G.336, Q.339, G.340, P.341, G.344 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.287, D:G.336, D:Q.339, D:P.341, D:G.344

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cho, S. et al., Cyanuric acid hydrolase from Azorhizobium caulinodans ORS 571: crystal structure and insights into a new class of Ser-Lys dyad proteins. Plos One (2014)

Release Date

2014-09-10

Peptides

Cyanuric acid amidohydrolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Cyanuric acid amidohydrolase