SMTL ID : 1utb.1

DNTR FROM BURKHOLDERIA SP. STRAIN DNT

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

hetero-oligomer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: D.113, R.140, H.236 Chain B: D.113, R.140, H.236 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.140, A:H.236, B:D.113, B:R.140, B:R.140 Water bridges: A:D.113, A:D.113 GOL.2: 7 residues within 4Å: Chain A: E.203, R.231, T.247, D.248, L.249 Chain B: M.124, A.128 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:M.124, A:E.203, A:R.231, A:D.248, A:L.249 GOL.4: 12 residues within 4Å: Chain A: M.117, I.238, F.265 Chain B: M.117, F.237, I.238, I.240, G.241, P.242, F.257, C.261, F.265 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:F.237, B:I.240, B:G.241 Water bridges: A:I.238 GOL.5: 8 residues within 4Å: Chain A: M.124, L.127, A.128 Chain B: E.203, R.231, T.247, D.248, L.249 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.203, B:R.231, B:D.248, A:M.124 GOL.6: 10 residues within 4Å: Chain B: Y.179, G.206, V.207, A.209, H.214, V.217, F.237, T.252, V.253, P.254 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:V.207 Water bridges: B:V.207, B:R.228, B:T.252, B:T.252 GOL.8: 6 residues within 4Å: Chain C: D.113, R.140, H.236 Chain D: D.113, R.140, H.236 6 PLIP interactions: 2 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:R.140, D:R.140, C:D.113, C:R.140 Water bridges: C:D.113, C:D.113 GOL.9: 7 residues within 4Å: Chain C: E.203, R.231, T.247, D.248, L.249 Chain D: M.124, A.128 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:M.124, C:E.203, C:R.231, C:D.248, C:L.249 GOL.11: 12 residues within 4Å: Chain C: M.117, I.238, F.265 Chain D: M.117, F.237, I.238, I.240, G.241, P.242, F.257, C.261, F.265 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:F.237, D:I.240, D:G.241 Water bridges: C:I.238 GOL.12: 8 residues within 4Å: Chain C: M.124, L.127, A.128 Chain D: E.203, R.231, T.247, D.248, L.249 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:M.124, D:E.203, D:R.231, D:D.248 GOL.13: 10 residues within 4Å: Chain D: Y.179, G.206, V.207, A.209, H.214, V.217, F.237, T.252, V.253, P.254 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:V.207 Water bridges: D:V.207, D:R.228, D:T.252, D:T.252

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

ACT.3: 6 residues within 4Å: Chain A: T.112, I.114, G.115, H.177, H.214, I.281 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.281 Hydrogen bonds: A:T.112 Water bridges: A:T.112 Salt bridges: A:H.177, A:H.214 ACT.7: 7 residues within 4Å: Chain B: T.112, I.114, G.115, F.119, H.177, H.214, I.281 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.119, B:I.281 Hydrogen bonds: B:T.112 Water bridges: B:T.112, B:L.159 Salt bridges: B:H.177, B:H.214 ACT.10: 6 residues within 4Å: Chain C: T.112, I.114, G.115, H.177, H.214, I.281 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.281 Water bridges: C:T.112 Salt bridges: C:H.177, C:H.214 ACT.14: 7 residues within 4Å: Chain D: T.112, I.114, G.115, F.119, H.177, H.214, I.281 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:F.119, D:I.281 Water bridges: D:T.112, D:L.159 Salt bridges: D:H.177, D:H.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smirnova, I.A. et al., Development of a Bacterial Biosensor for Nitrotoluenes: The Crystal Structure of the Transcriptional Regulator Dntr. J.Mol.Biol. (2004)

Release Date

2004-07-01

Peptides

LYSR-TYPE REGULATORY PROTEIN: AC
LYSR-TYPE REGULATORY PROTEIN: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

LYSR-TYPE REGULATORY PROTEIN

LYSR-TYPE REGULATORY PROTEIN