SMTL ID : 1dk8.1

CRYSTAL STRUCTURE OF THE RGS-HOMOLOGOUS DOMAIN OF AXIN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.74, Y.75 Chain B: F.32, S.131, D.132 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Water bridges: A:K.74, A:K.74, A:Y.75, A:Y.75, B:E.36, B:E.36, B:E.36, B:I.133 Salt bridges: A:K.74 Hydrogen bonds: B:D.132 SO4.2: 3 residues within 4Å: Chain A: P.5, T.6, K.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.6, A:T.6, A:T.6 Salt bridges: A:K.11 SO4.3: 3 residues within 4Å: Chain A: R.30, K.34 Chain B: S.127 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:S.127 Water bridges: B:E.36, A:R.30, A:K.34, A:K.34 Salt bridges: A:R.30, A:K.34 SO4.4: 5 residues within 4Å: Chain A: S.27 Chain B: I.82, R.85, Q.86 Ligands: SO4.6 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.85 Hydrogen bonds: A:S.27 Water bridges: A:T.31 SO4.5: 3 residues within 4Å: Chain A: T.140, G.141, S.142 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Water bridges: B:N.79, B:N.80, B:N.80, B:N.80, B:N.80 Hydrogen bonds: A:T.140, A:S.142 SO4.6: 3 residues within 4Å: Chain A: T.31, K.34 Ligands: SO4.4 4 PLIP interactions: 4 interactions with chain A Water bridges: A:T.31, A:K.34, A:K.34 Salt bridges: A:K.34 SO4.13: 2 residues within 4Å: Chain B: K.74, Y.75 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.75 Water bridges: B:Y.75 Salt bridges: B:K.74 SO4.14: 3 residues within 4Å: Chain B: P.5, T.6, K.11 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.6, B:T.6 Salt bridges: B:K.11 SO4.15: 2 residues within 4Å: Chain B: R.30, K.34 4 PLIP interactions: 4 interactions with chain B Water bridges: B:K.34, B:K.34 Salt bridges: B:R.30, B:K.34 SO4.16: 2 residues within 4Å: Chain B: S.27 Ligands: SO4.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.27 Water bridges: B:T.31, B:T.31 SO4.17: 3 residues within 4Å: Chain B: T.140, G.141, S.142 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:K.63 Hydrogen bonds: B:T.140, B:S.142 SO4.18: 4 residues within 4Å: Chain A: K.53 Chain B: T.31, K.34 Ligands: SO4.16 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Water bridges: B:T.31, B:K.34, B:K.34 Salt bridges: B:K.34, A:K.53

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.7: 6 residues within 4Å: Chain A: E.14, S.15, L.16, H.17, E.121, Y.125 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.16, A:E.121 Water bridges: A:Y.125 DTT.19: 6 residues within 4Å: Chain B: E.14, S.15, L.16, H.17, E.121, Y.125 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.16, B:E.121 Water bridges: B:E.121

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 6 residues within 4Å: Chain B: Y.72, I.76, K.92, S.93, K.96 Ligands: GOL.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.76, B:S.93, B:K.96 GOL.9: 4 residues within 4Å: Chain B: S.93, K.96 Ligands: GOL.8, GOL.24 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.146, B:K.96 Water bridges: A:V.147 GOL.10: 5 residues within 4Å: Chain A: C.98, L.103, I.104, D.105, M.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.105 Water bridges: A:D.105 GOL.11: 2 residues within 4Å: Chain A: Y.9, R.139 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.139 Water bridges: A:G.141 GOL.12: 3 residues within 4Å: Chain A: P.89, A.90, S.93 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.93 GOL.20: 4 residues within 4Å: Chain A: C.57, D.58, S.59 Ligands: GOL.21 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.58, A:D.58, A:S.59, A:S.59 GOL.21: 3 residues within 4Å: Chain A: C.57, D.58 Ligands: GOL.20 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.146, A:D.58 Water bridges: A:D.58, A:D.58 GOL.22: 5 residues within 4Å: Chain B: C.98, L.103, I.104, D.105, M.108 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.105 GOL.23: 2 residues within 4Å: Chain B: Y.9, R.139 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.9, B:R.139 Water bridges: B:G.141 GOL.24: 4 residues within 4Å: Chain B: P.89, A.90, S.93 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spink, K.E. et al., Structural basis of the Axin-adenomatous polyposis coli interaction. EMBO J. (2000)

Release Date

2000-07-12

Peptides

AXIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

AXIN

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