- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- monomer
- Ligands
- 1 x DG- DT- DC- DG- DG: DNA (5'-D(P*GP*TP*CP*GP*G)-3')(Non-covalent)
DG-DT-DC-DG-DG.1: 18 residues within 4Å:- Chain A: H.34, K.35, A.38, Y.39, L.62, P.63, G.64, V.65, G.66, T.67, K.68, I.69
- Chain C: C.1, C.2, G.3, A.4, C.5
- Ligands: NA.7
17 PLIP interactions:17 interactions with chain A- Hydrogen bonds: A:K.230, A:K.230, A:T.233, A:T.233, A:K.234, A:K.234, A:K.234, A:K.234, A:Y.271, A:Y.271, A:R.283, A:R.283, A:G.105, A:G.107, A:G.107, A:S.109, A:A.110, A:R.258
- Water bridges: A:H.34, A:N.133, A:H.134, A:T.101, A:T.101, A:V.103, A:I.106, A:S.109, A:S.109, A:D.190, A:D.190, A:R.254, A:R.254
- pi-Stacking: A:H.34
- Salt bridges: A:R.254
- 1 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)
DTP.2: 20 residues within 4Å:- Chain A: R.149, G.179, S.180, R.183, S.188, G.189, D.190, D.192, Y.271, F.272, T.273, G.274, S.275, D.276, N.279
- Chain B: C.10
- Chain C: G.6, G.7
- Ligands: MN.3, MN.4
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:R.149, A:S.180, A:S.180, A:R.183, A:G.189, A:D.190
- Salt bridges: A:R.183
- 6 x MN: MANGANESE (II) ION(Non-covalent)(Non-functional Binders)
MN.3: 5 residues within 4Å:- Chain A: D.190, D.192, D.256
- Ligands: DTP.2, MN.4
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.190, A:D.192, A:D.256, H2O.1, H2O.6
MN.4: 4 residues within 4Å:- Chain A: D.190, D.192
- Ligands: DTP.2, MN.3
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.190, A:D.192, H2O.1
MN.5: 1 residues within 4Å:- Chain A: D.124
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:D.124, H2O.5, H2O.5, H2O.5, H2O.5
MN.8: 2 residues within 4Å:- Chain B: G.4, A.5
No protein-ligand interaction detected (PLIP)MN.9: 1 residues within 4Å:- Chain C: G.15
No protein-ligand interaction detected (PLIP)MN.10: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)- 2 x NA: SODIUM ION(Non-functional Binders)
NA.6: 6 residues within 4Å:- Chain A: T.101, V.103, S.104, G.105, I.106
- Chain B: G.9
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:G.105, A:I.106, A:I.106
NA.7: 5 residues within 4Å:- Chain A: K.60, L.62, P.63, V.65
- Ligands: DG-DT-DC-DG-DG.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:V.65, A:V.65
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Freudenthal, B.D. et al., Observing a DNA polymerase choose right from wrong. Cell(Cambridge,Mass.) (2013)
- Release Date
- 2013-09-04
- Peptides
- DNA polymerase beta: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
SMTL ID : 4lvs.1
DNA polymerase beta mismatched substrate complex with Mn2+, 2.5 min
DNA polymerase beta
Related Entries With Identical Sequence
1bpx.1 | 1bpy.1 | 1bpz.1 | 1mq2.1 | 1mq3.1 | 1tv9.1 | 1tva.1 | 1zjm.1 | 1zjn.1 | 1zqa.1 | 1zqb.1 | 1zqc.1 | 1zqd.1 | 1zqe.1 | 1zqf.1 | 1zqg.1 | 1zqh.1 | 1zqi.1 | 1zqj.1 | 1zqk.1 | 1zql.1 | 1zqm.1 | 1zqn.1 | 1zqo.1 | 1zqp.1 | 1zqq.1 | 1zqr.1 | 1zqs.1 | 1zqt.1 | 2fmp.1 more...less...2fmq.1 | 2fms.1 | 2i9g.1 | 2iso.1 | 2isp.1 | 2p66.1 | 2pxi.1 | 3c2k.1 | 3c2l.1 | 3c2m.1 | 3isb.1 | 3isc.1 | 3isd.1 | 3jpn.1 | 3jpo.1 | 3jpp.1 | 3jpq.1 | 3jpr.1 | 3jps.1 | 3jpt.1 | 3lk9.1 | 3mby.1 | 3rh4.1 | 3rje.1 | 3rjf.1 | 3rjg.1 | 3rjh.1 | 3rji.1 | 3rjj.1 | 3rjk.1 | 3tfr.1 | 3tfs.1 | 4do9.1 | 4doa.1 | 4dob.1 | 4doc.1 | 4kld.1 | 4kle.1 | 4klf.1 | 4klg.1 | 4klh.1 | 4kli.1 | 4klj.1 | 4kll.1 | 4klm.1 | 4klo.1 | 4klq.1 | 4kls.1 | 4klt.1 | 4klu.1 | 4o9m.1 | 4rt2.1 | 4rt3.1 | 4uaw.1 | 4uay.1 | 4uaz.1 | 4ub1.1 | 4ub2.1 | 4ub3.1 | 4ub4.1 | 4ub5.1 | 4ubb.1 | 4ubc.1 | 4ymm.1 | 4ymn.1 | 4ymo.1 | 4yn4.1 | 5bol.1 | 5bom.1 | 5bpc.1 | 5db6.1 | 5db7.1 | 5db8.1 | 5db9.1 | 5dba.1 | 5dbb.1 | 5dbc.1 | 5eoz.1 | 5j0o.1 | 5j0p.1 | 5j0q.1 | 5j0r.1 | 5j0s.1 | 5j0t.1 | 5j0u.1 | 5j0w.1 | 5j0x.1 | 5j0y.1 | 5j29.1 | 5j2a.1 | 5j2b.1 | 5j2c.1 | 5j2d.1 | 5j2e.1 | 5j2f.1 | 5j2g.1 | 5j2h.1 | 5j2i.1 | 5j2j.1 | 5j2k.1 | 5tzv.1 | 5u8g.1 | 5u9h.1 | 5ugn.1 | 5ugo.1 | 5ugp.1 | 5v1f.1 | 5v1g.1 | 5v1h.1 | 5v1i.1 | 5v1j.1 | 5v1n.1 | 5v1o.1 | 5v1p.1 | 5v1r.1 | 5vez.1 | 5wnx.1 | 5wny.1 | 5wnz.1 | 5wo0.1 | 6bel.1 | 6bem.1 | 6cly.1 | 6cpq.1 | 6cr4.1 | 6cr5.1 | 6cr6.1 | 6cr7.1 | 6cr8.1 | 6cr9.1 | 6crb.1 | 6crc.1 | 6crh.1 | 6cu9.1 | 6cua.1 | 6cub.1 | 6dia.1 | 6e3r.1 | 6e3v.1 | 6e3w.1 | 6e3x.1 | 6g2q.1 | 6mr7.1 | 6n2r.1 | 6n2s.1 | 6n2t.1 | 6nku.1 | 6nkv.1 | 6nkw.1 | 6ph5.1 | 6ph6.1 | 6u2o.1 | 6u6b.1 | 6w2m.1 | 7ice.1 | 7icf.1 | 7icg.1 | 7ich.1 | 7ici.1 | 7icj.1 | 7ick.1 | 7icl.1 | 7icm.1 | 7icn.1 | 7ico.1 | 7icp.1 | 7icq.1 | 7icr.1 | 7ics.1 | 7ict.1 | 7icu.1 | 7icv.1 | 7k96.1 | 8ica.1 | 8icb.1 | 8icc.1 | 8ice.1 | 8icf.1 | 8icg.1 | 8ich.1 | 8ici.1 | 8icj.1 | 8ick.1 | 8icl.1 | 8icm.1 | 8icn.1 | 8ico.1 | 8icp.1 | 8icq.1 | 8icr.1 | 8ics.1 | 8ict.1 | 8icu.1 | 8icv.1 | 8icw.1 | 8icx.1 | 8icy.1 | 8icz.1 | 9ica.1 | 9icb.1 | 9icc.1 | 9ice.1 | 9icf.1 | 9icg.1 | 9ich.1 | 9ici.1 | 9icj.1 | 9ick.1 | 9icl.1 | 9icm.1 | 9icn.1 | 9ico.1 | 9icp.1 | 9icq.1 | 9icr.1 | 9ics.1 | 9ict.1 | 9icu.1 | 9icv.1 | 9icw.1 | 9icx.1 | 9icy.1