SMTL ID : 6x75.1

Rev1 Mn2+-facilitated Product Complex with second dCTP bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

4 x MN: MANGANESE (II) ION(Non-functional Binders)(Non-covalent)

MN.1: 2 residues within 4Å: Chain A: C.13 Ligands: DCP.5 No protein-ligand interaction detected (PLIP) MN.2: 7 residues within 4Å: Chain A: C.13 Chain C: D.58, S.161, D.163, E.164 Ligands: MN.3, DCP.5 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.58, C:D.163, C:E.164, H2O.1 MN.3: 5 residues within 4Å: Chain C: D.58, F.59, D.163 Ligands: MN.2, DCP.5 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.58, C:F.59, C:D.163 MN.4: 2 residues within 4Å: Chain C: D.244, V.249 6 PLIP interactions: 3 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.244, C:D.244, C:V.249, H2O.1, H2O.1, H2O.11

1 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)

DCP.5: 20 residues within 4Å: Chain A: C.13 Chain C: R.20, L.24, D.58, F.59, D.60, C.61, F.62, F.63, A.97, S.98, Y.101, R.104, N.110, G.111, D.163, K.221 Ligands: MN.1, MN.2, MN.3 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:F.63, C:N.110 Hydrogen bonds: C:R.20, C:C.61, C:F.62, C:F.63, C:S.98, C:S.98, C:Y.101, C:Y.101, C:N.110 Water bridges: C:D.95, C:R.104, C:R.104, C:R.104, C:N.110, C:R.214, C:R.214 Salt bridges: C:R.104, C:R.104, C:K.221

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain C: W.27, N.30, L.31, Q.138, S.141, E.142, Y.145, I.162 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:W.27, C:L.31, C:Q.138, C:S.141 Water bridges: C:E.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weaver, T.M. et al., Visualizing Rev1 catalyze protein-template DNA synthesis. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-09-30

Peptides

DNA repair protein REV1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA repair protein REV1

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