- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- monomer
- Ligands
- 1 x DG- DT- DC- DG- DG: 5-MER PHOSPHORYLATED DOWNSTREAM PRIMER(Non-covalent)
- 1 x 1RZ: Lamivudine Triphosphate(Non-covalent)
1RZ.2: 18 residues within 4Å:- Chain A: R.151, G.181, S.182, R.185, S.190, G.191, D.192, D.194, Y.273, F.274, G.276, D.278, N.281, R.285
- Chain B: C.10
- Chain C: G.6
- Ligands: CA.3, NA.13
12 PLIP interactions:12 interactions with chain A- Hydrogen bonds: A:S.182, A:S.182, A:G.191, A:D.192, A:D.278, A:R.285
- Water bridges: A:D.278, A:K.282, A:K.282, A:K.282
- Salt bridges: A:R.151, A:R.185
- 1 x CA: CALCIUM ION(Non-covalent)
- 4 x NA: SODIUM ION(Non-functional Binders)
NA.4: 4 residues within 4Å:- Chain A: K.62, L.64, V.67
- Ligands: DG-DT-DC-DG-DG.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:L.64
NA.5: 6 residues within 4Å:- Chain A: T.103, V.105, S.106, I.108
- Chain B: G.9
- Ligands: ACT.7
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:V.105, A:I.108
NA.6: 3 residues within 4Å:- Chain A: N.26, K.29, N.30
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.29, A:K.29, A:N.30
NA.13: 2 residues within 4Å:- Chain B: C.10
- Ligands: 1RZ.2
2 PLIP interactions:2 interactions with chain A- Water bridges: A:D.192, A:D.194
- 6 x ACT: ACETATE ION(Non-functional Binders)
ACT.7: 7 residues within 4Å:- Chain A: T.103, R.104, V.105, S.106
- Chain B: G.9, C.10
- Ligands: NA.5
No protein-ligand interaction detected (PLIP)ACT.8: 6 residues within 4Å:- Chain A: H.36, N.39, A.40, K.43
- Chain C: C.5
- Ligands: DG-DT-DC-DG-DG.1
1 PLIP interactions:1 interactions with chain A- Water bridges: A:N.39
ACT.9: 5 residues within 4Å:- Chain A: D.132, K.133, L.134, N.135, R.139
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:N.135
- Salt bridges: A:R.139
ACT.10: 4 residues within 4Å:- Chain A: A.112, N.135, Q.138
- Chain B: C.8
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.138
- Salt bridges: A:K.115
ACT.11: 4 residues within 4Å:- Chain A: K.43, P.65
- Ligands: DG-DT-DC-DG-DG.1, DG-DT-DC-DG-DG.1
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:P.65
- Salt bridges: A:K.43
ACT.12: 3 residues within 4Å:- Chain A: R.91, Q.92, S.97
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:S.97
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Vyas, R. et al., Structural basis for the D-stereoselectivity of human DNA polymerase beta. Nucleic Acids Res. (2017)
- Release Date
- 2017-05-24
- Peptides
- DNA polymerase beta: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- monomer
- Ligands
- 1 x DG- DT- DC- DG- DG: 5-MER PHOSPHORYLATED DOWNSTREAM PRIMER(Non-covalent)
- 1 x 1RZ: Lamivudine Triphosphate(Non-covalent)
- 1 x CA: CALCIUM ION(Non-covalent)
- 4 x NA: SODIUM ION(Non-functional Binders)
- 6 x ACT: ACETATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Vyas, R. et al., Structural basis for the D-stereoselectivity of human DNA polymerase beta. Nucleic Acids Res. (2017)
- Release Date
- 2017-05-24
- Peptides
- DNA polymerase beta: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A