SMTL ID : 3d9j.2 (1 other biounit)

Snapshots of the RNA processing factor SCAF8 bound to different phosphorylated forms of the Carboxy-Terminal Domain of RNA-Polymerase II

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

6 x NH4: AMMONIUM ION(Non-functional Binders)

NH4.1: 7 residues within 4Å: Chain A: I.37, S.73, F.77, K.81, D.82, V.83 Ligands: NH4.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.73, A:D.82, A:D.82, A:V.83 NH4.2: 3 residues within 4Å: Chain A: Y.17, I.21, S.22 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.22, A:S.22 Water bridges: A:S.22 NH4.3: 4 residues within 4Å: Chain A: K.38, F.39, Y.40, K.41 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.38, A:K.41 Water bridges: A:H.42 NH4.4: 3 residues within 4Å: Chain A: F.77, K.81 Ligands: NH4.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.81 NH4.5: 5 residues within 4Å: Chain A: Y.40, V.83, P.86, R.87 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.40, A:V.83, A:R.87 NH4.6: 4 residues within 4Å: Chain A: P.20, I.21, P.61, Y.64 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.21 Water bridges: A:I.21

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

SO4.7: 6 residues within 4Å: Chain A: Y.40, K.41, P.86, R.87, N.90 Ligands: NH4.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.40, A:N.90 Salt bridges: A:R.87 SO4.8: 2 residues within 4Å: Chain A: K.41, R.87 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.41, A:R.87 SO4.9: 2 residues within 4Å: Chain A: N.91, S.94 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.94 Water bridges: A:N.91, A:N.91 SO4.10: 2 residues within 4Å: Chain A: P.103, G.104 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.104

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 6 residues within 4Å: Chain A: N.8, L.11, Y.12, S.46, K.49, F.50 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Becker, R. et al., Snapshots of the RNA Processing Factor SCAF8 Bound to Different Phosphorylated Forms of the Carboxyl-terminal Domain of RNA Polymerase II. J.Biol.Chem. (2008)

Release Date

2008-06-10

Peptides

RNA-binding protein 16: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

RNA-binding protein 16

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