SMTL ID : 3urh.1

Crystal structure of a dihydrolipoamide dehydrogenase from Sinorhizobium meliloti 1021

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 38 residues within 4Å: Chain A: I.31, G.32, S.33, G.34, P.35, G.36, G.37, V.54, E.55, K.56, R.57, G.62, T.63, C.64, G.68, C.69, S.72, K.73, G.135, T.136, G.137, A.165, T.166, G.167, S.168, S.188, I.209, R.298, G.337, D.338, M.344, L.345, A.346, H.347, A.349, Y.377 Chain B: H.470, P.471 26 PLIP interactions: 25 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:T.63, A:I.209, A:I.209, A:I.209 Hydrogen bonds: A:G.32, A:G.34, A:G.36, A:G.37, A:K.56, A:K.56, A:R.57, A:T.63, A:T.63, A:C.64, A:K.73, A:G.137, A:G.137, A:S.168, A:D.338, A:A.346, A:H.347, A:H.347, B:H.470 Water bridges: A:G.167, A:G.167 pi-Cation interactions: A:K.56 FAD.3: 40 residues within 4Å: Chain A: H.470, P.471 Chain B: I.31, G.32, S.33, G.34, P.35, G.36, G.37, V.54, E.55, K.56, R.57, G.62, T.63, C.64, V.67, G.68, C.69, K.73, G.135, T.136, G.137, A.165, T.166, G.167, S.168, S.188, I.209, R.298, D.303, L.305, G.337, D.338, M.344, L.345, A.346, H.347, A.349, Y.377 22 PLIP interactions: 21 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.209 Hydrogen bonds: B:G.34, B:G.36, B:G.37, B:K.56, B:K.56, B:R.57, B:T.63, B:T.63, B:T.63, B:C.64, B:K.73, B:G.137, B:S.168, B:D.303, B:D.338, B:A.346, B:H.347, A:H.470 Water bridges: B:G.167, B:G.167 pi-Cation interactions: B:K.56

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

SO4.2: 3 residues within 4Å: Chain A: R.319, R.341, G.342 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.342 Water bridges: A:R.319, A:G.342 Salt bridges: A:R.317, A:R.319 SO4.4: 4 residues within 4Å: Chain B: D.303, G.304, L.305, G.306 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.303, B:G.304, B:G.306 Water bridges: B:T.302, B:L.305, B:L.307

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

EDO.5: 3 residues within 4Å: Chain B: G.207, V.208, I.209 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.208, B:I.209 Water bridges: B:G.210

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumaran, D. et al., Crystal structure of a dihydrolipoamide dehydrogenase from Sinorhizobium meliloti 1021. TO BE PUBLISHED

Release Date

2011-12-14

Peptides

Dihydrolipoyl dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dihydrolipoyl dehydrogenase