SMTL ID : 3ju8.1

Crystal Structure of Succinylglutamic Semialdehyde Dehydrogenase from Pseudomonas aeruginosa.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 25 residues within 4Å: Chain A: F.146, G.147, P.148, Y.149, N.150, L.155, K.173, P.174, S.175, R.206, V.210, F.223, T.224, G.225, S.226, T.229, E.248, M.249, G.250, C.282, E.380, F.382, L.408, F.447 Ligands: SIN.4 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.155, A:T.224 Hydrogen bonds: A:G.147, A:G.147, A:Y.149, A:K.173, A:K.173, A:S.226, A:T.229, A:E.380 Water bridges: A:N.150, A:G.209, A:S.227, A:E.248, A:E.248, A:R.286, A:E.380 NAD.15: 24 residues within 4Å: Chain B: F.146, G.147, P.148, Y.149, N.150, L.155, K.173, P.174, S.175, R.206, V.210, F.223, T.224, G.225, S.226, T.229, E.248, M.249, G.250, C.282, E.380, F.382, L.408, F.447 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.155, B:T.224 Hydrogen bonds: B:G.147, B:G.147, B:Y.149, B:K.173, B:R.206, B:R.206, B:S.226, B:E.380 Water bridges: B:N.150, B:S.227, B:E.248, B:R.286, B:E.380, B:E.380, B:G.449

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

SO4.2: 2 residues within 4Å: Chain A: R.80, K.187 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.80 SO4.3: 4 residues within 4Å: Chain A: S.105, N.108, I.112, S.443 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.105, A:N.108, A:S.443 Water bridges: A:S.105 SO4.5: 3 residues within 4Å: Chain A: D.393, F.394, R.419 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.394 Salt bridges: A:R.419 SO4.6: 4 residues within 4Å: Chain A: D.415, S.416, R.417, E.418 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.416, A:R.417, A:E.418 SO4.7: 2 residues within 4Å: Chain A: P.56, R.60 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.57, A:A.57 Salt bridges: A:R.60 SO4.16: 3 residues within 4Å: Chain B: R.80, K.187 Ligands: MG.22 4 PLIP interactions: 4 interactions with chain B Water bridges: B:R.80, B:Q.191 Salt bridges: B:R.80, B:K.187 SO4.17: 4 residues within 4Å: Chain B: S.105, N.108, I.112, S.443 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.105, B:N.108 Water bridges: B:S.105, B:S.443, B:S.443, B:S.443 SO4.18: 3 residues within 4Å: Chain B: P.56, A.57, R.60 3 PLIP interactions: 3 interactions with chain B Water bridges: B:A.57, B:A.57 Salt bridges: B:R.60

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.4: 11 residues within 4Å: Chain A: N.150, F.151, L.155, R.281, C.282, T.283, T.439, G.440, A.441, F.447 Ligands: NAD.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.151, A:R.281, A:T.283 Hydrogen bonds: A:N.150, A:C.282, A:T.283, A:G.440, A:A.441 Salt bridges: A:R.281

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 5 residues within 4Å: Chain A: D.264, V.267, Y.268, V.306 Chain B: L.485 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.264, A:Y.268 GOL.9: 5 residues within 4Å: Chain A: L.63, F.117, R.118, G.122, E.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.123, A:E.123 Water bridges: A:G.122 GOL.10: 2 residues within 4Å: Chain A: T.309, L.310 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.309 GOL.11: 4 residues within 4Å: Chain A: Q.292, G.293, D.297, R.390 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.293, A:D.297, A:R.390, A:R.390 Water bridges: A:D.369, A:S.371, A:S.371 GOL.12: 4 residues within 4Å: Chain A: D.378, A.403, T.404, Q.405 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.405 Water bridges: A:R.376, A:A.403, A:T.404, A:T.404 GOL.13: 6 residues within 4Å: Chain A: H.234, N.455, R.457 Chain B: H.234, N.455, R.457 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:H.234, A:N.455, A:R.457, A:R.457, B:H.234, B:N.455, B:R.457 GOL.14: 3 residues within 4Å: Chain A: L.485 Chain B: D.264, Y.268 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.264, B:Y.268 GOL.21: 5 residues within 4Å: Chain B: L.63, F.117, R.118, G.122, E.123 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.123, B:E.123

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.19: 2 residues within 4Å: Chain B: T.283, G.440 Ligand excluded by PLIP CL.20: 3 residues within 4Å: Chain B: S.416, R.417, E.418 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.22: 1 residues within 4Å: Ligands: SO4.16 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Succinylglutamic Semialdehyde Dehydrogenase from Pseudomonas aeruginosa. To be Published

Release Date

2009-09-22

Peptides

Succinylglutamic semialdehyde dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Succinylglutamic semialdehyde dehydrogenase