SMTL ID : 4zk6.2 (1 other biounit)

Crystallographic Capture of Quinolinate Synthase (NadA) from Pyrococcus horikoshii in its Substrates and Product-Bound States

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

monomer

Ligands

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 6 residues within 4Å: Chain A: Y.23, C.83, A.84, C.170, C.256 Ligands: NTM.2 4 PLIP interactions: 4 interactions with chain A, Salt bridges: A:E.198 Metal complexes: A:C.83, A:C.170, A:C.256

1 x NTM: QUINOLINIC ACID(Non-covalent)

NTM.2: 15 residues within 4Å: Chain A: H.21, Y.23, D.37, S.38, M.61, Y.109, N.111, H.173, H.196, E.198, M.259 Ligands: SF4.1, NA.5, NA.6, CL.7 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.38, A:S.38, A:Y.109, A:Y.109, A:N.111 Salt bridges: A:H.21, A:H.21 pi-Stacking: A:Y.23

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 4 residues within 4Å: Chain A: C.221, D.224, Q.244, K.245 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.221, A:Q.244 Salt bridges: A:K.245 ACT.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 7 residues within 4Å: Chain A: H.21, Y.23, D.37, H.196, T.213 Ligands: NTM.2, CL.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.21, A:T.213 NA.6: 6 residues within 4Å: Chain A: S.38, L.39, T.125, S.126 Ligands: NTM.2, CL.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.38, A:L.39, A:S.126, A:S.126

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

CL.7: 8 residues within 4Å: Chain A: D.37, S.126, H.196, S.212, T.213 Ligands: NTM.2, NA.5, NA.6 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Esakova, O.A. et al., Structure of Quinolinate Synthase from Pyrococcus horikoshii in the Presence of Its Product, Quinolinic Acid. J.Am.Chem.Soc. (2016)

Release Date

2016-06-29

Peptides

Quinolinate synthase A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Quinolinate synthase A

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