SMTL ID : 6m75.1

C-Myc DNA binding protein complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.57 Å

Oligo State

monomer

Ligands

1 x DC- DT- DT- DA- DT- DT: DNA (5'-D(*TP*CP*TP*TP*AP*TP*T)-3')(Non-covalent)

DC-DT-DT-DA-DT-DT.1: 13 residues within 4Å: Chain A: N.6, Y.8, R.10, K.35, K.46, G.47, Y.48, F.50, Q.72, Q.74, A.76, K.77, Q.81 Protein-ligand interaction information (PLIP) not available

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

SO4.2: 1 residues within 4Å: Chain A: K.46 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.46 SO4.3: 2 residues within 4Å: Chain A: R.10, Q.74 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.74 Salt bridges: A:R.10 SO4.4: 3 residues within 4Å: Chain A: D.118, S.119, R.124 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.118, A:S.119 Salt bridges: A:R.124 SO4.5: 4 residues within 4Å: Chain A: V.63, K.67, Q.74, M.75 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.75 Salt bridges: A:K.67 SO4.6: 1 residues within 4Å: Chain A: K.35 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.35, A:K.40 SO4.7: 3 residues within 4Å: Chain A: K.77, Q.78, Q.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.78, A:Q.79 SO4.8: 3 residues within 4Å: Chain A: G.29, K.30, S.55 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.30, A:S.55 Water bridges: A:A.58, A:A.58 SO4.9: 3 residues within 4Å: Chain A: L.38, D.39, K.40 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.40 Salt bridges: A:K.40, A:K.46 SO4.10: 6 residues within 4Å: Chain A: A.2, M.3, G.4, T.5, N.6, Q.78 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.2, A:G.4, A:T.5, A:N.6, A:N.6, A:Q.78 SO4.11: 3 residues within 4Å: Chain A: S.55, P.56, A.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aggarwal, P. et al., Hinge like domain motion facilitates human RBMS1 protein binding to proto-oncogene c-myc promoter. Nucleic Acids Res. (2021)

Release Date

2021-03-17

Peptides

RNA-binding motif, single-stranded-interacting protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA-binding motif, single-stranded-interacting protein 1

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