SMTL ID : 2bsl.1

Crystal structure of L. lactis dihydroorotate dehydrogense A in complex with 3,4-dihydroxybenzoate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: A.18, S.19, G.20, V.21, K.43, S.44, Y.58, N.67, M.69, N.127, K.164, V.192, N.193, S.194, G.220, G.221, I.224, T.248, G.249, G.250, G.271, T.272 Ligands: ACT.2 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:V.21, A:Y.58 Hydrogen bonds: A:S.19, A:S.19, A:S.44, A:S.44, A:S.44, A:N.127, A:K.164, A:K.164, A:N.193, A:G.221, A:G.250, A:G.271, A:T.272 Water bridges: A:K.43, A:K.43, A:S.99, A:G.249, A:I.251, A:I.251, A:I.251 FMN.5: 22 residues within 4Å: Chain B: A.18, S.19, G.20, K.43, S.44, Y.58, N.67, M.69, N.127, K.164, V.192, N.193, S.194, G.220, G.221, I.224, T.248, G.249, G.250, G.271, T.272 Ligands: DHB.6 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:Y.58 Hydrogen bonds: B:S.19, B:S.44, B:S.44, B:S.44, B:N.127, B:K.164, B:K.164, B:N.193, B:G.221, B:G.250, B:G.271, B:T.272, B:T.272 Water bridges: B:S.19, B:S.19, B:E.125, B:G.249, B:G.249, B:I.251, B:I.251

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

ACT.2: 5 residues within 4Å: Chain A: N.127, C.130, P.131, N.193 Ligands: FMN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.127, A:N.132, A:N.193

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: K.33, A.34, S.35 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:K.33, A:S.35, H2O.1 MG.7: 3 residues within 4Å: Chain B: K.33, S.35, A.37 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:K.33, B:S.35, H2O.4, H2O.4

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: Y.141, Y.168, F.169, D.170, H.173 Chain B: Y.141, F.169, H.173 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:H.173, A:F.169, A:D.170

1 x DHB: 3,4-DIHYDROXYBENZOIC ACID(Non-covalent)

DHB.6: 13 residues within 4Å: Chain B: K.43, N.67, M.69, G.70, L.71, P.72, N.127, C.130, P.131, N.132, N.193, S.194 Ligands: FMN.5 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.71 Hydrogen bonds: B:N.67, B:M.69, B:G.70, B:L.71, B:N.127, B:N.132, B:N.193, B:N.193, B:S.194, B:S.194 Salt bridges: B:K.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wolfe, A.E. et al., Interaction of Benzoate Pyrimidine Analogues with Class 1A Dihydroorotate Dehydrogenase from Lactococcus Lactis. Biochemistry (2007)

Release Date

2006-08-29

Peptides

DIHYDROOROTATE DEHYDROGENASE A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DIHYDROOROTATE DEHYDROGENASE A

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