SMTL ID : 3nyn.3 (2 other biounits)

Crystal Structure of G Protein-Coupled Receptor Kinase 6 in Complex with Sangivamycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

homo-dimer

Ligands

2 x SGV: SANGIVAMYCIN(Non-covalent)

SGV.1: 14 residues within 4Å: Chain A: L.192, G.193, V.200, A.213, K.215, L.263, T.264, M.266, D.270, E.315, N.316, L.318, S.328, D.329 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.200, A:L.318 Hydrogen bonds: A:T.264, A:M.266, A:D.270, A:D.329 Water bridges: A:K.215, A:K.215 SGV.10: 12 residues within 4Å: Chain B: G.193, V.200, A.213, K.215, L.263, T.264, M.266, D.270, E.315, L.318, S.328, D.329 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.200, B:L.318 Hydrogen bonds: B:T.264, B:M.266, B:D.270, B:E.315, B:D.329, B:D.329 Water bridges: B:K.215, B:D.329

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

SO4.2: 3 residues within 4Å: Chain A: S.27, R.187, R.206 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.27 Salt bridges: A:R.187, A:R.206 SO4.3: 6 residues within 4Å: Chain A: P.94, D.95, R.98, N.452, K.454, R.455 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.95, A:D.95, A:R.98, A:N.452 Salt bridges: A:K.454, A:R.455 SO4.4: 2 residues within 4Å: Chain A: W.30, R.31 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.31 SO4.5: 4 residues within 4Å: Chain A: K.29, M.33, N.184, R.206 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.184 Salt bridges: A:K.29, A:R.206 SO4.6: 4 residues within 4Å: Chain A: R.59, N.242 Chain B: W.539, K.540 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.242 Salt bridges: A:R.59, B:K.540 SO4.8: 3 residues within 4Å: Chain A: K.272, H.277, K.475 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.272, A:H.277, A:K.475 SO4.9: 3 residues within 4Å: Chain A: K.183, T.255, K.256 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.256 Salt bridges: A:K.183, A:K.256 SO4.11: 3 residues within 4Å: Chain B: S.27, R.187, R.206 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.187, B:R.206 SO4.12: 5 residues within 4Å: Chain B: P.94, D.95, R.98, N.452, R.455 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.95, B:D.95, B:D.95, B:R.98, B:N.452 Salt bridges: B:K.454, B:R.455 SO4.13: 2 residues within 4Å: Chain B: W.30, R.31 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.31 SO4.14: 3 residues within 4Å: Chain B: K.29, N.184, R.206 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.29, B:R.206 SO4.15: 4 residues within 4Å: Chain A: W.539, K.540 Chain B: R.59, N.242 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:K.540, B:R.59 Hydrogen bonds: B:N.242 SO4.17: 3 residues within 4Å: Chain B: K.272, H.277, K.475 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:K.272, B:H.277, B:K.475 SO4.18: 3 residues within 4Å: Chain B: K.183, T.255, K.256 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.256 Salt bridges: B:K.183

2 x BU3: (R,R)-2,3-BUTANEDIOL(Non-covalent)

BU3.7: 5 residues within 4Å: Chain A: Y.53, C.57, E.58, R.64, R.68 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:E.58, A:R.68 Hydrogen bonds: A:E.58, A:R.64, A:R.64 BU3.16: 6 residues within 4Å: Chain B: Y.53, C.57, E.58, R.64, R.68, V.81 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:R.68, B:V.81 Hydrogen bonds: B:E.58, B:E.58, B:R.64, B:R.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boguth, C.A. et al., Molecular basis for activation of G protein-coupled receptor kinases. Embo J. (2010)

Release Date

2010-09-22

Peptides

G protein-coupled receptor kinase 6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

G protein-coupled receptor kinase 6

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