SMTL ID : 3o4r.1

Crystal Structure of Human Dehydrogenase/Reductase (SDR family) member 4 (DHRS4)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 28 residues within 4Å: Chain A: A.22, T.24, D.25, G.26, I.27, S.46, R.47, K.48, N.51, C.71, H.72, V.73, N.99, A.100, A.101, V.150, S.151, S.152, Y.165, K.169, P.195, G.196, L.197, I.198, T.200, S.201, F.202, S.203 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:P.195 Hydrogen bonds: A:A.22, A:T.24, A:T.24, A:D.25, A:I.27, A:S.46, A:S.46, A:R.47, A:K.48, A:N.51, A:H.72, A:V.73, A:N.99, A:N.99, A:Y.165, A:K.169, A:I.198, A:T.200, A:F.202, A:S.203, A:S.203 Water bridges: A:D.25, A:G.28, A:R.47, A:R.47, A:A.101, A:S.201, A:S.201 Salt bridges: A:R.47 NAP.4: 28 residues within 4Å: Chain B: A.22, T.24, D.25, G.26, I.27, S.46, R.47, K.48, N.51, C.71, H.72, V.73, N.99, A.100, A.101, V.150, S.151, S.152, Y.165, K.169, P.195, G.196, L.197, I.198, T.200, F.202, S.203 Ligands: GOL.7 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:P.195 Hydrogen bonds: B:A.22, B:T.24, B:T.24, B:T.24, B:D.25, B:I.27, B:S.46, B:R.47, B:K.48, B:N.51, B:H.72, B:V.73, B:N.99, B:Y.165, B:K.169, B:I.198, B:T.200, B:F.202, B:S.203, B:S.203 Water bridges: B:D.25, B:R.47, B:R.47, B:R.47, B:R.47, B:N.99, B:A.101, B:S.201, B:S.201 Salt bridges: B:R.47 NAP.8: 29 residues within 4Å: Chain C: A.22, T.24, D.25, G.26, I.27, S.46, R.47, K.48, N.51, C.71, H.72, V.73, N.99, A.100, A.101, V.150, S.151, S.152, Y.165, K.169, P.195, G.196, L.197, I.198, T.200, S.201, F.202, S.203 Ligands: GOL.9 29 PLIP interactions: 29 interactions with chain C Hydrophobic interactions: C:P.195 Hydrogen bonds: C:A.22, C:T.24, C:D.25, C:I.27, C:S.46, C:S.46, C:R.47, C:K.48, C:N.51, C:H.72, C:V.73, C:N.99, C:Y.165, C:K.169, C:I.198, C:T.200, C:T.200, C:F.202, C:S.203, C:S.203 Water bridges: C:D.25, C:G.28, C:R.47, C:R.47, C:N.99, C:A.101, C:S.201 Salt bridges: C:R.47 NAP.10: 27 residues within 4Å: Chain D: A.22, T.24, D.25, G.26, I.27, S.46, R.47, K.48, N.51, C.71, H.72, V.73, N.99, A.100, A.101, V.150, S.151, S.152, Y.165, K.169, P.195, G.196, L.197, I.198, T.200, F.202, S.203 26 PLIP interactions: 26 interactions with chain D Hydrophobic interactions: D:P.195 Hydrogen bonds: D:A.22, D:T.24, D:T.24, D:D.25, D:D.25, D:I.27, D:S.46, D:R.47, D:K.48, D:N.51, D:H.72, D:V.73, D:N.99, D:K.169, D:I.198, D:F.202, D:S.203, D:S.203 Water bridges: D:R.47, D:R.47, D:N.99, D:N.99, D:A.101, D:S.201 Salt bridges: D:R.47

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

EDO.2: 5 residues within 4Å: Chain A: A.184, N.187, R.189 Chain C: R.223, G.255 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.223, C:G.255, A:N.187 Water bridges: C:R.223 EDO.5: 4 residues within 4Å: Chain B: F.106, S.108, P.160, G.161 No protein-ligand interaction detected (PLIP) EDO.6: 4 residues within 4Å: Chain B: R.223 Chain D: A.184, N.187, R.189 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain B Hydrogen bonds: D:N.187, B:R.223 Water bridges: B:R.223, B:G.255 EDO.11: 6 residues within 4Å: Chain B: A.184, N.187, R.189, T.247 Chain D: R.223, G.255 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain D Hydrogen bonds: B:N.187, D:R.223, D:G.255 Water bridges: D:R.223

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 2 residues within 4Å: Chain A: R.47, H.72 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.72 Salt bridges: A:R.47, A:H.72

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain B: S.152, Y.165, F.202, S.203, L.206 Ligands: NAP.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.152, B:S.152, B:F.202 GOL.9: 3 residues within 4Å: Chain C: S.152, Y.165 Ligands: NAP.8 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.152, C:Y.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ugochukwu, E. et al., Crystal Structure of Human Dehydrogenase/Reductase (SDR family) member 4 (DHRS4). To be Published

Release Date

2010-08-04

Peptides

Dehydrogenase/reductase SDR family member 4: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Dehydrogenase/reductase SDR family member 4