SMTL ID : 3i16.1

Crystal structure of carbon-sulfur lyase involved in aluminum resistance (YP_878183.1) from Clostridium novyi NT at 2.00 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

3 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.1: 8 residues within 4Å: Chain A: N.99, G.100, T.101, Y.126, C.220, Y.221, K.244 Chain D: Y.68 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:G.100, A:T.101, A:T.101, A:T.101, A:K.244, D:Y.68, D:Y.68 Water bridges: A:S.241 Salt bridges: A:K.244, A:K.244 TLA.12: 7 residues within 4Å: Chain B: Y.68 Chain C: N.99, G.100, T.101, Y.126, Y.221, K.244 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:G.100, C:T.101, C:T.101, C:Y.221, C:K.244, B:Y.68, B:Y.68 Salt bridges: C:K.244, C:K.244 TLA.20: 7 residues within 4Å: Chain A: Y.68 Chain D: N.99, G.100, T.101, Y.126, Y.221, K.244 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:G.100, D:T.101, D:T.101, D:K.244, A:Y.68 Salt bridges: D:K.244, D:K.244

20 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: R.41, E.303, K.306, F.411 Chain B: R.41, H.299 Ligands: EDO.8 Ligand excluded by PLIP EDO.3: 12 residues within 4Å: Chain A: F.109, M.141, G.142, F.147, R.270 Chain D: F.109, G.110, R.113, Y.269, R.270, P.274 Ligands: EDO.21 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain A: R.288, S.289, Q.292 Chain B: I.250 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: E.59, F.62 Chain C: T.63, N.64, S.65 Ligand excluded by PLIP EDO.7: 12 residues within 4Å: Chain B: F.109, M.141, G.142, F.147, R.270 Chain C: F.109, G.110, R.113, Y.269, R.270, P.274 Ligands: EDO.14 Ligand excluded by PLIP EDO.8: 7 residues within 4Å: Chain A: R.41, H.299 Chain B: R.41, E.303, K.306, F.411 Ligands: EDO.2 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: I.250, I.384 Chain B: R.288, S.289, Q.292 Ligand excluded by PLIP EDO.10: 7 residues within 4Å: Chain B: G.160, K.161, R.192, A.193, L.194, L.195, D.198 Ligand excluded by PLIP EDO.11: 6 residues within 4Å: Chain B: D.262, E.265, K.266 Chain C: S.139, N.140, M.141 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain C: R.41, E.303, K.306, F.411 Chain D: R.41, H.299 Ligands: EDO.23 Ligand excluded by PLIP EDO.14: 8 residues within 4Å: Chain B: F.109, F.147, R.270 Chain C: F.109, F.147, R.270 Ligands: EDO.7, EDO.15 Ligand excluded by PLIP EDO.15: 12 residues within 4Å: Chain B: F.109, G.110, R.113, Y.269, R.270, P.274 Chain C: F.109, M.141, G.142, F.147, R.270 Ligands: EDO.14 Ligand excluded by PLIP EDO.16: 6 residues within 4Å: Chain C: E.265, S.268, Y.269, G.277, G.278, E.279 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain C: R.288, S.289, Q.292 Chain D: I.250, I.384 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain C: A.80, A.83, E.89, S.90, A.91 Ligand excluded by PLIP EDO.19: 7 residues within 4Å: Chain B: S.139, N.140, M.141 Chain C: D.262, E.265, K.266, Y.269 Ligand excluded by PLIP EDO.21: 8 residues within 4Å: Chain A: F.109, F.147, R.270 Chain D: F.109, F.147, R.270 Ligands: EDO.3, EDO.22 Ligand excluded by PLIP EDO.22: 11 residues within 4Å: Chain A: F.109, G.110, R.113, Y.269, R.270 Chain D: F.109, M.141, G.142, F.147, R.270 Ligands: EDO.21 Ligand excluded by PLIP EDO.23: 7 residues within 4Å: Chain C: R.41, H.299 Chain D: R.41, E.303, K.306, F.411 Ligands: EDO.13 Ligand excluded by PLIP EDO.24: 5 residues within 4Å: Chain C: I.250, I.384 Chain D: R.288, S.289, Q.292 Ligand excluded by PLIP

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.6: 12 residues within 4Å: Chain B: N.99, G.100, T.101, L.104, Y.126, Q.183, S.185, D.218, C.220, Y.221, K.244 Chain C: Y.68 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:Y.126, B:Q.183 Hydrogen bonds: B:N.99, B:G.100, B:T.101, B:S.241, C:Y.68 Water bridges: B:K.244 Salt bridges: B:K.244 pi-Stacking: B:Y.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of carbon-sulfur lyase involved in aluminum resistance (YP_878183.1) from Clostridium novyi NT at 2.00 A resolution. To be published

Release Date

2009-07-21

Peptides

Aluminum resistance protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Aluminum resistance protein

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