SMTL ID : 3d36.1

How to Switch Off a Histidine Kinase: Crystal Structure of Geobacillus stearothermophilus KinB with the Inhibitor Sda

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

hetero-2-1-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: N.134, K.183 Ligands: ADP.2 No protein-ligand interaction detected (PLIP) MG.3: 3 residues within 4Å: Chain B: N.134, K.183 Ligands: ADP.4 No protein-ligand interaction detected (PLIP)

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 19 residues within 4Å: Chain A: N.134, A.135, A.138, D.162, G.166, M.167, L.175, F.180, T.181, T.182, K.183, G.187, T.188, G.189, L.190, G.191, M.192, T.216 Ligands: MG.1 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:N.134, A:D.162, A:T.181, A:T.182, A:T.182, A:T.188, A:G.189, A:L.190, A:G.191, A:M.192, A:T.216 Water bridges: A:G.166, A:G.176, A:T.182, A:K.183, A:K.183, A:K.186, A:T.188, A:M.193 Salt bridges: A:K.183, A:K.183 pi-Cation interactions: A:K.183 ADP.4: 20 residues within 4Å: Chain B: N.134, A.135, E.137, A.138, D.162, G.166, M.167, L.175, F.180, T.181, T.182, K.183, G.187, T.188, G.189, L.190, G.191, M.192, T.216 Ligands: MG.3 25 PLIP interactions: 25 interactions with chain B Hydrogen bonds: B:N.134, B:D.162, B:T.181, B:T.181, B:T.182, B:T.182, B:T.188, B:G.189, B:G.189, B:L.190, B:G.191, B:M.192 Water bridges: B:D.162, B:G.176, B:T.182, B:K.183, B:K.183, B:K.186, B:T.188, B:M.193, B:T.216, B:T.216 Salt bridges: B:K.183, B:K.183 pi-Cation interactions: B:K.183

4 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 3 residues within 4Å: Chain B: A.31, G.34, F.35 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:A.31, B:F.35, B:F.35 MPD.6: 6 residues within 4Å: Chain B: I.21, Y.70, K.123, V.194, I.198 Ligands: MPD.7 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.21, B:V.194, B:I.198 MPD.7: 7 residues within 4Å: Chain A: I.21, Y.70, L.71, K.123, V.194 Chain B: P.76 Ligands: MPD.6 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.21, A:L.71, A:K.123, A:V.194 Water bridges: B:E.79 MPD.8: 5 residues within 4Å: Chain A: D.47, K.48, Q.51 Chain C: S.5, L.8 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:D.47 Water bridges: A:D.47, A:Q.51, C:S.5 Hydrogen bonds: C:S.5, C:S.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bick, M.J. et al., How to switch off a histidine kinase: crystal structure of Geobacillus stearothermophilus KinB with the inhibitor Sda. J.Mol.Biol. (2009)

Release Date

2009-01-13

Peptides

Sporulation kinase B: AB
Sporulation kinase inhibitor Sda: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Sporulation kinase B

Sporulation kinase inhibitor Sda