SMTL ID : 3i4u.1

Crystal Structure Analysis of a helicase associated domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

6 x BR: BROMIDE ION(Non-covalent)

BR.1: 5 residues within 4Å: Chain A: R.41, L.42, R.45, I.60, H.64 Ligand excluded by PLIP BR.2: 3 residues within 4Å: Chain A: E.52, F.177, H.218 Ligand excluded by PLIP BR.3: 3 residues within 4Å: Chain A: V.80, Q.81, R.140 Ligand excluded by PLIP BR.11: 5 residues within 4Å: Chain B: R.41, L.42, R.45, I.60, H.64 Ligand excluded by PLIP BR.12: 3 residues within 4Å: Chain B: E.52, F.177, H.218 Ligand excluded by PLIP BR.13: 3 residues within 4Å: Chain B: V.80, Q.81, R.140 Ligand excluded by PLIP

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: Y.115, Q.142, R.145, K.146, L.149 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.115, A:Q.142, A:R.145, A:K.146 GOL.5: 5 residues within 4Å: Chain A: G.150, I.151, R.154, H.155 Ligands: GOL.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.150, A:R.154 Water bridges: A:E.48, A:E.48, A:R.154 GOL.6: 5 residues within 4Å: Chain A: K.146, Q.147, G.150, I.151 Ligands: GOL.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.147 GOL.7: 4 residues within 4Å: Chain A: S.117, N.120, N.121, W.127 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.120, A:N.121, A:N.121 Water bridges: A:S.117 GOL.8: 6 residues within 4Å: Chain A: F.84, D.107, T.110, L.111, A.206, E.230 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.107, A:A.206, A:E.230 Water bridges: A:V.231 GOL.9: 4 residues within 4Å: Chain A: V.167, K.171, R.237, W.238 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.171, A:R.237 Water bridges: A:D.235, A:D.235 GOL.10: 4 residues within 4Å: Chain A: P.50, L.51, Q.147, M.148 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.147 GOL.14: 5 residues within 4Å: Chain B: Y.115, Q.142, R.145, K.146, L.149 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.115, B:Q.142, B:R.145, B:K.146 GOL.15: 5 residues within 4Å: Chain B: G.150, I.151, R.154, H.155 Ligands: GOL.16 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.150, B:R.154 Water bridges: B:E.48, B:R.154 GOL.16: 5 residues within 4Å: Chain B: K.146, Q.147, G.150, I.151 Ligands: GOL.15 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.147 GOL.17: 4 residues within 4Å: Chain B: S.117, N.120, N.121, W.127 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.120, B:N.121, B:N.121 Water bridges: B:S.117 GOL.18: 6 residues within 4Å: Chain B: F.84, D.107, T.110, L.111, A.206, E.230 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.206, B:E.230 Water bridges: B:V.231 GOL.19: 4 residues within 4Å: Chain B: V.167, K.171, R.237, W.238 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.171, B:R.237 Water bridges: B:D.235 GOL.20: 4 residues within 4Å: Chain B: P.50, L.51, Q.147, M.148 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kudlinzki, D. et al., Structural analysis of the C-terminal domain of the spliceosomal helicase Prp22. Biol.Chem. (2012)

Release Date

2010-07-07

Peptides

ATP-dependent RNA helicase DHX8: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ATP-dependent RNA helicase DHX8