- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- monomer
- Ligands
- 1 x DA- DC- DG- DT- DC- DA- DT- DA- DA: DNA (5'-D(*AP*CP*GP*TP*CP*AP*TP*AP*A)-3')(Non-covalent)
- 2 x XG4: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine(Non-covalent)
XG4.2: 20 residues within 4Å:- Chain A: D.16, M.17, D.18, C.19, F.20, F.21, I.51, A.52, Y.55, R.58, R.64, I.117, D.118, K.234
- Chain B: A.3, C.4, T.5
- Ligands: DA-DC-DG-DT-DC-DA-DT-DA-DA.1, MG.3, MG.4
20 PLIP interactions:20 interactions with chain A- Hydrophobic interactions: A:F.21
- Hydrogen bonds: A:M.17, A:C.19, A:F.20, A:F.21, A:Q.41, A:Y.55, A:R.58, A:R.64
- Water bridges: A:D.16, A:D.16, A:Q.41, A:Y.55, A:R.58, A:R.58, A:R.58, A:R.64, A:S.116
- Salt bridges: A:R.58, A:K.234
XG4.13: 5 residues within 4Å:- Chain A: S.260, L.265, K.296, N.297, W.300
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:S.260, A:S.260
- pi-Stacking: A:W.300, A:W.300, A:W.300
- pi-Cation interactions: A:W.300
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 6 residues within 4Å:- Chain A: D.16, M.17, D.118, K.234
- Ligands: XG4.2, MG.4
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.16, A:M.17, A:D.118
MG.4: 8 residues within 4Å:- Chain A: D.16, S.116, D.118, E.119
- Ligands: DA-DC-DG-DT-DC-DA-DT-DA-DA.1, XG4.2, MG.3, GOL.7
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.16, A:D.118, A:E.119, H2O.1
- 11 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 6 residues within 4Å:- Chain A: P.247, F.250, S.251, G.279, E.280
- Ligands: GOL.11
No protein-ligand interaction detected (PLIP)GOL.6: 4 residues within 4Å:- Chain A: K.320, R.364, K.431, F.432
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.364, A:F.432
- Water bridges: A:K.431
GOL.7: 6 residues within 4Å:- Chain A: D.16, E.119, K.227, C.230, G.231
- Ligands: MG.4
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.16, A:K.227
- Water bridges: A:K.227, A:L.228
GOL.8: 5 residues within 4Å:- Chain A: Q.23, Q.26, R.27, R.33, G.212
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.23
- Water bridges: A:Q.26, A:Q.26
GOL.9: 4 residues within 4Å:- Chain A: I.150, E.151, G.152, L.153
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:I.150, A:E.151, A:G.152, A:L.153
- Water bridges: A:E.151, A:N.233
GOL.10: 5 residues within 4Å:- Chain A: Q.8, D.190, S.242, H.243, G.244
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.242, A:G.244
- Water bridges: A:H.243
GOL.11: 7 residues within 4Å:- Chain A: H.243, V.246, P.247, T.282, C.305, R.306
- Ligands: GOL.5
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.243
GOL.12: 9 residues within 4Å:- Chain A: K.227, R.256, K.257, I.258, R.259, S.260, G.262
- Ligands: DA-DC-DG-DT-DC-DA-DT-DA-DA.1, DA-DC-DG-DT-DC-DA-DT-DA-DA.1
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.227, A:R.256, A:S.260
- Water bridges: A:R.259
GOL.14: 2 residues within 4Å:- Chain B: C.10, G.11
No protein-ligand interaction detected (PLIP)GOL.15: 2 residues within 4Å:- Chain B: T.5, A.6
No protein-ligand interaction detected (PLIP)GOL.16: 5 residues within 4Å:- Chain A: A.115
- Chain B: A.6, T.7
- Ligands: DA-DC-DG-DT-DC-DA-DT-DA-DA.1, DA-DC-DG-DT-DC-DA-DT-DA-DA.1
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Biertumpfel, C. et al., Structure and mechanism of human DNA polymerase eta. Nature (2010)
- Release Date
- 2010-06-30
- Peptides
- DNA polymerase eta: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
SMTL ID : 3mr5.1
Human DNA polymerase eta - DNA ternary complex with a CPD 1bp upstream of the active site (TT3)
DNA polymerase eta
Related Entries With Identical Sequence
3jaa.1 | 3mr2.1 | 3mr3.1 | 3si8.1 | 4dl2.1 | 4dl3.1 | 4dl4.1 | 4dl5.1 | 4dl6.1 | 4dl7.1 | 4ecq.1 | 4ecr.1 | 4ecs.1 | 4ect.1 | 4ecu.1 | 4ecv.1 | 4ecw.1 | 4ecx.1 | 4ecy.1 | 4ecz.1 | 4ed0.1 | 4ed1.1 | 4ed2.1 | 4ed3.1 | 4ed6.1 | 4ed7.1 | 4ed8.1 | 4j9k.1 | 4j9l.1 | 4j9m.1 more...less...4j9n.1 | 4j9o.1 | 4j9p.1 | 4j9q.1 | 4j9r.1 | 4j9s.1 | 4o3n.1 | 4o3o.1 | 4o3p.1 | 4o3q.1 | 4o3r.1 | 4q8e.1 | 4q8f.1 | 4rnm.1 | 4rnn.1 | 4rno.1 | 5dg7.1 | 5dg8.1 | 5dg9.1 | 5dga.1 | 5dgb.1 | 5dlf.1 | 5dlg.1 | 5dqg.1 | 5dqh.1 | 5dqi.1 | 5ewe.1 | 5ewf.1 | 5ewg.1 | 5f9l.1 | 5f9n.1 | 5jum.1 | 5kfa.1 | 5kfb.1 | 5kfc.1 | 5kfd.1 | 5kfe.1 | 5kff.1 | 5kfg.1 | 5kfh.1 | 5kfi.1 | 5kfj.1 | 5kfk.1 | 5kfl.1 | 5kfm.1 | 5kfn.1 | 5kfo.1 | 5kfp.1 | 5kfq.1 | 5kfr.1 | 5kfy.1 | 5kfz.1 | 5kg0.1 | 5kg1.1 | 5kg2.1 | 5kg3.1 | 5kg4.1 | 5kg5.1 | 5kg6.1 | 5kg7.1 | 5l1i.1 | 5l1j.1 | 5l1k.1 | 5l1l.1 | 5l9x.1 | 6m7o.1 | 6m7p.1 | 6m7t.1 | 6m7u.1 | 6m7v.1 | 6mp3.1 | 6pl7.1 | 6pl8.1 | 6plc.1 | 6ui2.1 | 7m7l.1 | 7m7m.1 | 7m7n.1 | 7m7o.1 | 7m7y.1 | 7m7z.1 | 7m80.1 | 7m81.1 | 7m82.1 | 7u72.1 | 7u73.1 | 7u74.1 | 7u75.1 | 7u76.1 | 7u77.1 | 7u78.1 | 7u79.1 | 7u7a.1 | 7u7b.1 | 7u7c.1 | 7u7d.1 | 7u7e.1 | 7u7f.1 | 7u7g.1 | 7u7i.1 | 7u7j.1 | 7u7k.1 | 7u7l.1 | 7u7r.1 | 7u7s.1 | 7u7t.1 | 7u7u.1 | 7u7v.1 | 7u7w.1 | 7u7x.1 | 7u7y.1 | 7u7z.1 | 7u80.1 | 7u81.1 | 7u82.1 | 7u83.1 | 7u84.1 | 8e85.1 | 8e86.1 | 8e87.1 | 8e88.1 | 8e89.1 | 8e8a.1 | 8e8b.1 | 8e8c.1 | 8e8d.1 | 8e8e.1 | 8e8f.1 | 8e8g.1 | 8e8h.1 | 8e8j.1 | 8e8k.1 | 8eve.1 | 8evf.1 | 8ujt.1 | 8ujv.1 | 8ujx.1 | 8uk4.1 | 8v7a.1 | 8v7b.1 | 8v7c.1 | 8v7d.1 | 8v7e.1 | 8v7f.1 | 8v7g.1 | 8v7h.1 | 8v7i.1 | 8v7j.1 | 8v7k.1 | 9chw.1 | 9ci9.1 | 9cih.1 | 9ciq.1 | 9cj9.1