SMTL ID : 1xhl.1

Crystal Structure of putative Tropinone Reductase-II from Caenorhabditis Elegans with Cofactor and Substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 31 residues within 4Å: Chain A: G.33, S.34, S.35, N.36, G.37, I.38, G.57, R.58, N.59, R.62, A.85, D.86, V.87, T.88, N.113, A.114, G.115, L.138, V.164, S.165, S.166, Y.180, K.184, P.210, G.211, A.212, V.213, T.215, G.216, F.217 Ligands: TNE.2 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:P.210, A:V.213 Hydrogen bonds: A:S.35, A:S.35, A:N.36, A:N.36, A:I.38, A:R.58, A:N.59, A:D.86, A:V.87, A:N.113, A:G.115, A:Y.180, A:K.184, A:V.213, A:V.213, A:T.215, A:T.215, A:G.216, A:G.216 Water bridges: A:N.36, A:N.36, A:G.39, A:R.58, A:R.58, A:R.58, A:R.58, A:N.113 Salt bridges: A:R.58, A:R.62 NDP.3: 30 residues within 4Å: Chain B: G.33, S.34, S.35, N.36, G.37, I.38, G.57, R.58, N.59, R.62, A.85, D.86, V.87, N.113, A.114, G.115, L.138, V.164, S.165, S.166, Y.180, K.184, P.210, G.211, A.212, V.213, T.215, G.216, F.217 Ligands: TNE.4 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:P.210 Hydrogen bonds: B:S.35, B:S.35, B:N.36, B:N.36, B:I.38, B:R.58, B:N.59, B:D.86, B:V.87, B:N.113, B:G.115, B:K.184, B:V.213, B:V.213, B:T.215, B:G.216, B:G.216 Water bridges: B:N.36, B:N.36, B:G.39, B:R.58, B:R.58, B:R.58, B:R.58, B:R.58, B:R.62, B:R.62, B:N.113 Salt bridges: B:R.58, B:R.62 NDP.5: 31 residues within 4Å: Chain C: G.33, S.34, S.35, N.36, G.37, I.38, G.57, R.58, N.59, R.62, A.85, D.86, V.87, T.88, N.113, A.114, G.115, L.138, V.164, S.165, S.166, Y.180, K.184, P.210, G.211, A.212, V.213, T.215, G.216, F.217 Ligands: TNE.6 30 PLIP interactions: 30 interactions with chain C Hydrophobic interactions: C:P.210, C:V.213 Hydrogen bonds: C:S.35, C:S.35, C:N.36, C:N.36, C:I.38, C:R.58, C:N.59, C:D.86, C:D.86, C:V.87, C:N.113, C:G.115, C:K.184, C:V.213, C:V.213, C:T.215, C:G.216, C:G.216 Water bridges: C:N.36, C:N.36, C:G.39, C:R.58, C:R.58, C:R.58, C:R.58, C:N.113 Salt bridges: C:R.58, C:R.62 NDP.7: 30 residues within 4Å: Chain D: G.33, S.34, S.35, N.36, G.37, I.38, G.57, R.58, N.59, R.62, A.85, D.86, V.87, N.113, A.114, G.115, L.138, V.164, S.165, S.166, Y.180, K.184, P.210, G.211, A.212, V.213, T.215, G.216, F.217 Ligands: TNE.8 34 PLIP interactions: 34 interactions with chain D Hydrophobic interactions: D:P.210 Hydrogen bonds: D:S.35, D:S.35, D:N.36, D:N.36, D:I.38, D:R.58, D:N.59, D:D.86, D:D.86, D:V.87, D:N.113, D:G.115, D:Y.180, D:K.184, D:V.213, D:V.213, D:T.215, D:T.215, D:G.216, D:G.216 Water bridges: D:N.36, D:N.36, D:G.39, D:R.58, D:R.58, D:R.58, D:R.58, D:R.58, D:R.62, D:R.62, D:N.113 Salt bridges: D:R.58, D:R.62

4 x TNE: 8-METHYL-8-AZABICYCLO[3,2,1]OCTAN-3-ONE(Non-covalent)

TNE.2: 10 residues within 4Å: Chain A: I.167, Y.177, G.211, A.212, F.217, M.218, L.231, Y.232 Chain D: M.286 Ligands: NDP.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.217 Water bridges: A:S.166 TNE.4: 7 residues within 4Å: Chain B: Y.177, G.211, A.212, F.217, M.218 Chain C: M.286 Ligands: NDP.3 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.212, B:F.217 TNE.6: 10 residues within 4Å: Chain B: M.286 Chain C: I.167, Y.177, G.211, A.212, F.217, M.218, L.231, Y.232 Ligands: NDP.5 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:F.217 Water bridges: C:S.166 TNE.8: 7 residues within 4Å: Chain A: M.286 Chain D: Y.177, G.211, A.212, F.217, M.218 Ligands: NDP.7 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:A.212, D:F.217 Hydrogen bonds: D:Y.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schormann, N. et al., Crystal Structure of putative Tropinone Reductase-II from Caenorhabditis Elegans with Cofactor and Substrate. To be Published

Release Date

2004-09-28

Peptides

Short-chain dehydrogenase/reductase family member (5L265), putative Tropinone Reductase-II: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Short-chain dehydrogenase/reductase family member (5L265), putative Tropinone Reductase-II