SMTL ID : 4it9.1

Structure of Bacterial Enzyme

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: P.226, T.227, Y.435 Chain B: P.226, T.227, Y.435 Ligand excluded by PLIP EDO.2: 9 residues within 4Å: Chain A: G.411, A.412, P.426, F.427, G.428, R.437 Chain B: A.450, K.451, T.452 Ligand excluded by PLIP EDO.3: 8 residues within 4Å: Chain A: E.169, L.172, E.173, F.177, P.178, G.180, V.181, F.182 Ligand excluded by PLIP EDO.4: 7 residues within 4Å: Chain A: D.314, I.315, Q.318, E.361, L.362, F.363 Ligands: EDO.9 Ligand excluded by PLIP EDO.5: 3 residues within 4Å: Chain A: P.24, Q.194 Ligands: EDO.6 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: P.24, S.190, Q.191 Ligands: EDO.5 Ligand excluded by PLIP EDO.7: 7 residues within 4Å: Chain A: S.209, E.210, P.211, L.231, G.232, E.361, F.387 Ligand excluded by PLIP EDO.8: 11 residues within 4Å: Chain A: L.126, P.145, A.146, A.149, N.151, G.443, I.444, R.445, T.446, F.447, V.448 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: I.311, E.361, F.363 Ligands: EDO.4 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: F.134, M.258, S.263, I.265, M.418 Ligand excluded by PLIP EDO.11: 9 residues within 4Å: Chain A: L.155, K.156, H.157, A.158, A.165, T.184, L.185, L.186, I.187 Ligand excluded by PLIP EDO.12: 5 residues within 4Å: Chain A: Q.321, A.322, A.355, K.356, I.357 Ligand excluded by PLIP EDO.13: 6 residues within 4Å: Chain A: R.269, L.358, Q.359, L.381, D.384, I.385 Ligand excluded by PLIP EDO.14: 10 residues within 4Å: Chain A: R.42, F.46, R.49, L.104, Y.120, Q.121, P.122, A.149 Ligands: EDO.15, EDO.16 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain A: R.42, Q.121, P.122 Ligands: EDO.14 Ligand excluded by PLIP EDO.16: 5 residues within 4Å: Chain A: T.44, S.45, F.46, R.49 Ligands: EDO.14 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: A.189, V.192, A.212, S.215, L.216 Ligand excluded by PLIP EDO.19: 4 residues within 4Å: Chain B: K.33, E.36, A.37, E.179 Ligand excluded by PLIP EDO.20: 8 residues within 4Å: Chain B: E.169, L.172, E.173, F.177, P.178, G.180, V.181, F.182 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain B: P.24, Q.194 Ligands: EDO.25 Ligand excluded by PLIP EDO.22: 8 residues within 4Å: Chain B: I.311, D.314, I.315, Q.318, E.361, L.362, F.363 Ligands: EDO.28 Ligand excluded by PLIP EDO.23: 2 residues within 4Å: Chain B: I.59, A.174 Ligand excluded by PLIP EDO.24: 6 residues within 4Å: Chain B: F.134, M.258, S.263, I.265, M.418 Ligands: EDO.29 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain B: P.24, S.190, Q.191 Ligands: EDO.21 Ligand excluded by PLIP EDO.26: 7 residues within 4Å: Chain B: S.209, E.210, P.211, L.231, G.232, E.361, F.387 Ligand excluded by PLIP EDO.27: 11 residues within 4Å: Chain B: L.126, P.145, A.146, A.149, N.151, G.443, I.444, R.445, T.446, F.447, V.448 Ligand excluded by PLIP EDO.28: 4 residues within 4Å: Chain B: I.311, E.361, F.363 Ligands: EDO.22 Ligand excluded by PLIP EDO.29: 8 residues within 4Å: Chain B: F.134, W.137, Q.138, R.141, C.264, I.265, S.421 Ligands: EDO.24 Ligand excluded by PLIP EDO.30: 3 residues within 4Å: Chain B: S.290, L.291, D.302 Ligand excluded by PLIP EDO.31: 5 residues within 4Å: Chain B: Q.321, A.322, A.355, K.356, I.357 Ligand excluded by PLIP EDO.32: 5 residues within 4Å: Chain B: A.189, V.192, A.212, S.215, L.216 Ligand excluded by PLIP

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

PO4.18: 4 residues within 4Å: Chain A: K.156, A.158, S.159, A.189 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.159, A:S.159, A:S.159, A:S.159, A:A.189 Salt bridges: A:K.156 PO4.33: 4 residues within 4Å: Chain B: K.156, A.158, S.159, A.189 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.159, B:S.159, B:S.159, B:A.189 Water bridges: B:S.159 Salt bridges: B:K.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, J. et al., Structural Basis for a Cofactor-dependent Oxidation Protection and Catalysis of Cyanobacterial Succinic Semialdehyde Dehydrogenase. J.Biol.Chem. (2013)

Release Date

2013-04-24

Peptides

Succinate-semialdehyde dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Succinate-semialdehyde dehydrogenase

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