SMTL ID : 2xdr.1

CRYSTALLOGRAPHIC STRUCTURE OF BETAINE ALDEHYDE DEHYDROGENASE MUTANT E252A FROM PSEUDOMONAS AERUGINOSA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: W.160, T.286, I.437, S.446, V.452, E.463 Ligands: TOE.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.446, A:S.446 Water bridges: A:E.463 GOL.6: 7 residues within 4Å: Chain B: W.160, T.286, I.437, S.446, V.452, E.463 Ligands: GOL.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.446, B:S.446 Water bridges: B:T.286, B:E.463 GOL.7: 5 residues within 4Å: Chain B: Y.153, Q.156, W.160, V.284 Ligands: GOL.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.156 Water bridges: B:N.152 GOL.8: 5 residues within 4Å: Chain B: F.3, E.4, Q.6, L.88, K.186 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.4, B:K.186 Water bridges: B:Q.6, B:Q.6 GOL.9: 5 residues within 4Å: Chain B: E.4, E.5, Q.6, K.7, Y.14 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.7 GOL.13: 4 residues within 4Å: Chain C: F.3, E.4, Q.6, K.186 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:E.4, C:E.4, C:K.186 Water bridges: C:Q.6 GOL.14: 5 residues within 4Å: Chain C: Y.153, Q.156, W.160, V.284 Ligands: GOL.15 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.156 Water bridges: C:N.152 GOL.15: 6 residues within 4Å: Chain C: W.160, A.251, T.286, V.452, E.463 Ligands: GOL.14 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.463 Water bridges: C:T.286, C:E.463 GOL.16: 5 residues within 4Å: Chain C: R.313, L.314, D.319, N.321, T.322 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:L.314, C:D.319 GOL.17: 4 residues within 4Å: Chain C: S.335, G.338, Y.339, S.342 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.335, C:G.338, C:Y.339 GOL.21: 5 residues within 4Å: Chain D: E.4, E.5, Q.6, K.7, Y.14 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:K.7 Water bridges: D:E.4, D:E.4 GOL.22: 5 residues within 4Å: Chain D: Y.153, Q.156, W.160, V.284 Ligands: GOL.23 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.156 Water bridges: D:N.152 GOL.23: 7 residues within 4Å: Chain D: W.160, T.286, I.437, S.446, V.452, E.463 Ligands: GOL.22 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:S.446 Water bridges: D:G.444, D:E.463 GOL.24: 4 residues within 4Å: Chain D: F.3, E.4, Q.6, K.186 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:E.4, D:E.4, D:Q.6, D:Q.6, D:K.186 Water bridges: D:E.4

1 x TOE: 2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL(Non-covalent)

TOE.2: 9 residues within 4Å: Chain A: T.107, Y.153, Q.156, I.157, T.227, G.444, E.445, S.446 Ligands: GOL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.156, A:S.446 Water bridges: A:N.152, A:N.152

8 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: T.25, I.26, D.92, V.179 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:T.25, A:I.26, A:D.92, A:V.179 K.4: 3 residues within 4Å: Chain A: K.456, G.459 Chain B: L.245 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:K.456, A:G.459 K.10: 3 residues within 4Å: Chain A: L.245 Chain B: K.456, G.459 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:K.456 K.11: 4 residues within 4Å: Chain B: T.25, I.26, D.92, V.179 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.92, B:V.179 K.18: 4 residues within 4Å: Chain C: T.25, I.26, D.92, V.179 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:V.179 K.19: 3 residues within 4Å: Chain C: K.456, G.459 Chain D: L.245 No protein-ligand interaction detected (PLIP) K.25: 4 residues within 4Å: Chain D: T.25, I.26, D.92, V.179 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:I.26, D:D.92, D:V.179 K.26: 3 residues within 4Å: Chain C: L.245 Chain D: K.456, G.459 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:K.456, D:G.459

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.5: 17 residues within 4Å: Chain A: I.148, G.149, K.175, P.176, S.177, E.178, G.206, S.207, G.208, G.212, Q.213, F.226, T.227, G.228, G.229, T.232, V.236 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.149, A:G.149, A:K.175, A:E.178, A:G.208, A:G.229, A:T.232 Water bridges: A:R.209, A:R.209, A:Q.213, A:T.232, A:T.232, A:T.232 Salt bridges: A:K.175 NDP.12: 18 residues within 4Å: Chain B: I.148, G.149, K.175, P.176, S.177, E.178, G.206, S.207, G.208, R.209, G.212, Q.213, F.226, T.227, G.228, G.229, T.232, V.236 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:G.149, B:K.175, B:S.177, B:E.178, B:G.208, B:G.229, B:T.232, B:T.232 Water bridges: B:S.207, B:R.209, B:R.209, B:R.209, B:Q.213, B:T.232 Salt bridges: B:K.175 NDP.20: 17 residues within 4Å: Chain C: I.148, G.149, K.175, P.176, S.177, E.178, G.206, S.207, G.208, G.212, Q.213, F.226, T.227, G.228, G.229, T.232, V.236 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:G.149, C:K.175, C:S.177, C:E.178, C:E.178, C:G.208, C:G.229, C:T.232, C:T.232 Water bridges: C:R.209, C:R.209, C:K.235 Salt bridges: C:K.175 NDP.27: 16 residues within 4Å: Chain D: I.148, G.149, K.175, S.177, E.178, G.206, S.207, G.208, G.212, Q.213, F.226, T.227, G.228, G.229, T.232, V.236 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:G.149, D:K.175, D:S.177, D:E.178, D:S.207, D:G.208, D:G.229, D:T.232 Water bridges: D:G.208, D:T.232, D:K.235 Salt bridges: D:K.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diaz-Sanchez, A.G. et al., A Novel Cysteine-Nadph Covalent Adduct in Pseudomonas Aeruginosa Betaine Aldehyde Dehydrogenase Suggests Important Roles for the Reduced Nucleotide in the Reaction Mechanism. To be Published

Release Date

2011-06-22

Peptides

BETAINE ALDEHYDE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

BETAINE ALDEHYDE DEHYDROGENASE