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

A Tandem SH2 Domain in Transcription Elongation Factor Spt6 Binds the Phosphorylated RNA Polymerase II C-terminal Repeat Domain(CTD)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

8 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 5 residues within 4Å: Chain A: R.36, Q.37, S.38, S.39 Chain D: R.40 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain A Hydrophobic interactions: D:R.40 Hydrogen bonds: A:S.39, A:S.39 Water bridges: A:R.36 Salt bridges: A:R.36 ACT.2: 6 residues within 4Å: Chain A: V.75, R.82 Chain C: R.82, Y.83, H.84 Ligands: ACT.7 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:R.82 Salt bridges: C:H.84, A:R.82 Hydrogen bonds: A:E.65 ACT.3: 6 residues within 4Å: Chain B: E.65, R.82 Chain D: R.82, Y.83, H.84 Ligands: ACT.8 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Salt bridges: B:R.82, D:H.84 ACT.4: 5 residues within 4Å: Chain B: R.36, S.38, S.39, R.40 Chain C: R.40 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:S.39 Water bridges: B:R.40, C:R.40 Salt bridges: B:R.36, C:R.40 ACT.6: 5 residues within 4Å: Chain B: R.40 Chain C: R.36, Q.37, S.38, S.39 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:S.39, C:S.39 Water bridges: C:R.36 Salt bridges: C:R.36 Hydrophobic interactions: B:R.40 ACT.7: 6 residues within 4Å: Chain A: R.82, Y.83, H.84 Chain C: V.75, R.82 Ligands: ACT.2 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:R.82 Salt bridges: A:H.84, C:R.82 Hydrogen bonds: C:E.65 ACT.8: 6 residues within 4Å: Chain B: R.82, Y.83, H.84 Chain D: E.65, R.82 Ligands: ACT.3 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Salt bridges: B:H.84, D:R.82 ACT.9: 5 residues within 4Å: Chain A: R.40 Chain D: R.36, S.38, S.39, R.40 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:S.39 Water bridges: D:R.40, A:R.40 Salt bridges: D:R.36, A:R.40

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.5: 4 residues within 4Å: Chain B: F.121, D.124, Y.125, V.128 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.124, B:D.124 MES.10: 4 residues within 4Å: Chain D: F.121, D.124, Y.125, V.128 1 PLIP interactions: 1 interactions with chain D Water bridges: D:D.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, M. et al., A tandem SH2 domain in transcription elongation factor Spt6 binds the phosphorylated RNA polymerase II C-terminal repeat domain (CTD). J.Biol.Chem. (2010)

Release Date

2010-11-24

Peptides

Transcription elongation factor SPT6: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transcription elongation factor SPT6

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