SMTL ID : 5w7n.1

2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x U- C- G- A- C- A: RNA (5'-R(*UP*CP*GP*AP*CP*A)-3')(Non-covalent)

U-C-G-A-C-A.1: 14 residues within 4Å: Chain A: E.48, N.71, S.72, Q.73, K.119, W.120, T.122 Ligands: DA-US3-DG-US3-DC-DG.2, DA-US3-DG-US3-DC-DG.2, DA-US3-DG-US3-DC-DG.2, DA-US3-DG-US3-DC-DG.2, DA-US3-DG-US3-DC-DG.2, DA-US3-DG-US3-DC-DG.2, MG.4 Protein-ligand interaction information (PLIP) not available

1 x DA- US3- DG- US3- DC- DG: DNA (5'-D(*AP*(US3)P*GP*(US3)P*CP*G)-3')(Non-covalent)

DA-US3-DG-US3-DC-DG.2: 18 residues within 4Å: Chain A: N.16, P.17, T.43, N.44, N.45, M.46, T.74, K.77, W.78, K.85, S.86, T.87, L.88 Ligands: U-C-G-A-C-A.1, U-C-G-A-C-A.1, U-C-G-A-C-A.1, U-C-G-A-C-A.1, U-C-G-A-C-A.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.45, A:S.86, A:T.87, A:L.88

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: D.10, D.131 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.10, A:D.131, H2O.1, H2O.1, H2O.1 MG.4: 4 residues within 4Å: Chain A: D.10, E.48, N.71 Ligands: U-C-G-A-C-A.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.10, A:E.48, A:E.48, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, Z. et al., 2-Se-T2/4-modified-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutant. To Be Published

Release Date

2017-06-28

Peptides

Ribonuclease H: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ribonuclease H

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