SMTL ID : 1nvf.2 (1 other biounit)

Crystal structure of 3-dehydroquinate synthase (DHQS) in complex with ZN2+, ADP and carbaphosphonate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.146, E.194, H.271, H.287 Ligands: CRB.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.194, A:H.271, A:H.287 ZN.7: 5 residues within 4Å: Chain B: D.146, E.194, H.271, H.287 Ligands: CRB.12 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.194, B:H.271, B:H.287

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

CL.2: 3 residues within 4Å: Chain A: K.89 Chain B: K.89 Ligands: CL.8 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain A: E.181, R.231 Ligand excluded by PLIP CL.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain A: K.89 Chain B: K.89 Ligands: CL.2 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain B: E.181, R.231 Ligand excluded by PLIP CL.10: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.5: 15 residues within 4Å: Chain A: D.44, N.46, I.47, G.114, G.115, V.116, T.139, T.140, L.142, F.179, T.182, L.183, P.184, E.187, N.190 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.44, A:N.46, A:G.114, A:G.115, A:V.116, A:T.139, A:T.140, A:T.140, A:N.190 Water bridges: A:L.142 ADP.11: 15 residues within 4Å: Chain B: D.44, N.46, I.47, G.114, G.115, V.116, T.139, T.140, L.142, F.179, T.182, L.183, P.184, E.187, N.190 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.44, B:N.46, B:G.114, B:G.115, B:V.116, B:T.139, B:T.140, B:T.140, B:N.190 Water bridges: B:L.142

2 x CRB: [1R-(1ALPHA,3BETA,4ALPHA,5BETA)]-5-(PHOSPHONOMETHYL)-1,3,4-TRIHYDROXYCYCLOHEXANE-1-CARBOXYLIC ACID(Non-covalent)

CRB.6: 15 residues within 4Å: Chain A: D.146, K.152, N.162, E.194, K.197, K.250, R.264, L.267, N.268, H.271, H.275, H.287, K.356 Chain B: R.130 Ligands: ZN.1 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:K.152 Hydrogen bonds: A:K.152, A:N.162, A:K.197, A:R.264, A:L.267, A:N.268, A:N.268, A:K.356, B:R.130, B:R.130 Water bridges: A:H.275 Salt bridges: A:K.152, A:K.250, A:R.264 CRB.12: 15 residues within 4Å: Chain A: R.130 Chain B: D.146, K.152, N.162, E.194, K.197, K.250, R.264, L.267, N.268, H.271, H.275, H.287, K.356 Ligands: ZN.7 15 PLIP interactions: 13 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:K.152 Hydrogen bonds: B:K.152, B:N.162, B:K.197, B:R.264, B:L.267, B:N.268, B:N.268, B:K.356, A:R.130, A:R.130 Water bridges: B:H.275 Salt bridges: B:K.152, B:K.250, B:R.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nichols, C.E. et al., Ligand-induced Conformational Changes and a Mechanism for Domain Closure in Aspergillus nidulans Dehydroquinate Synthase. J.MOL.BIOL. (2003)

Release Date

2003-03-18

Peptides

3-DEHYDROQUINATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

3-DEHYDROQUINATE SYNTHASE

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