SMTL ID : 6mfh.1

Mutated Uronate Dehydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-hexamer

Ligands

18 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.1: 8 residues within 4Å: Chain A: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.2: 11 residues within 4Å: Chain A: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.3: 8 residues within 4Å: Chain A: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP DTT.6: 8 residues within 4Å: Chain B: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.7: 11 residues within 4Å: Chain B: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.8: 8 residues within 4Å: Chain B: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP DTT.11: 8 residues within 4Å: Chain C: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.12: 11 residues within 4Å: Chain C: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.13: 8 residues within 4Å: Chain C: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP DTT.16: 8 residues within 4Å: Chain D: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.17: 11 residues within 4Å: Chain D: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.18: 8 residues within 4Å: Chain D: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP DTT.21: 8 residues within 4Å: Chain E: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.22: 11 residues within 4Å: Chain E: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.23: 8 residues within 4Å: Chain E: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP DTT.26: 8 residues within 4Å: Chain F: I.34, C.49, D.50, L.51, A.52, G.72, Q.84, A.85 Ligand excluded by PLIP DTT.27: 11 residues within 4Å: Chain F: R.19, P.20, L.22, G.23, A.26, H.27, V.29, E.41, A.42, H.43, E.44 Ligand excluded by PLIP DTT.28: 8 residues within 4Å: Chain F: L.70, G.71, V.73, S.74, A.108, Y.135, K.139, I.162 Ligand excluded by PLIP

12 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 6 residues within 4Å: Chain A: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.111 Water bridges: A:G.163, A:C.165 Salt bridges: A:H.112, A:R.173 PO4.5: 4 residues within 4Å: Chain A: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.74, A:V.75 Water bridges: A:R.77 PO4.9: 6 residues within 4Å: Chain B: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.111 Water bridges: B:G.163, B:C.165 Salt bridges: B:H.112, B:R.173 PO4.10: 4 residues within 4Å: Chain B: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.74, B:V.75 Water bridges: B:R.77 PO4.14: 6 residues within 4Å: Chain C: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.111 Water bridges: C:G.163, C:C.165 Salt bridges: C:H.112, C:R.173 PO4.15: 4 residues within 4Å: Chain C: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.74, C:V.75 Water bridges: C:R.77 PO4.19: 6 residues within 4Å: Chain D: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:N.111 Water bridges: D:G.163, D:C.165 Salt bridges: D:H.112, D:R.173 PO4.20: 4 residues within 4Å: Chain D: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.74, D:V.75 Water bridges: D:R.77 PO4.24: 6 residues within 4Å: Chain E: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:N.111 Water bridges: E:G.163, E:C.165 Salt bridges: E:H.112, E:R.173 PO4.25: 4 residues within 4Å: Chain E: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:S.74, E:V.75 Water bridges: E:R.77 PO4.29: 6 residues within 4Å: Chain F: N.111, H.112, G.163, S.164, R.173, F.257 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:N.111 Water bridges: F:G.163, F:C.165 Salt bridges: F:H.112, F:R.173 PO4.30: 4 residues within 4Å: Chain F: G.72, V.73, S.74, V.75 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:S.74, F:V.75 Water bridges: F:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wagschal, K. et al., Chromohalobacter salixigens uronate dehydrogenase: Directed evolution for improved thermal stability and mutant CsUDH-inc X-ray crystal structure. Process Biochem (2020)

Release Date

2019-09-11

Peptides

Mutated Uronate Dehydrogenase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Mutated Uronate Dehydrogenase