SMTL ID : 8tlt.1

Cryo-EM structure of Rev1(deltaN)-Polzeta-DNA-dCTP complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-1-1-mer

Ligands

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 8 residues within 4Å: Chain A: R.886, C.1480, C.1483, C.1502, C.1507, V.1509, F.1510, R.1513 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.1480, A:C.1483, A:C.1502, A:C.1507

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: F.1010, D.1178 Ligands: DCP.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:F.1010, A:D.1178

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

DCP.3: 16 residues within 4Å: Chain A: F.1010, Q.1011, S.1012, L.1013, Y.1014, P.1015, R.1091, K.1120, N.1124, Y.1127, T.1177, D.1178 Chain G: C.11 Chain H: G.5, G.6 Ligands: CA.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.1014 Hydrogen bonds: A:S.1012, A:L.1013, A:Y.1014, A:N.1124, A:N.1124, A:N.1124 Salt bridges: A:R.1091, A:K.1095, A:K.1120, A:K.1120, A:K.1120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Malik, R. et al., Cryo-EM structure of the Rev1-Pol zeta holocomplex reveals the mechanism of their cooperativity in translesion DNA synthesis. Nat.Struct.Mol.Biol. (2024)

Release Date

2024-05-15

Peptides

DNA polymerase zeta catalytic subunit: A
DNA polymerase zeta processivity subunit: BC
DNA polymerase delta small subunit: D
DNA polymerase delta subunit 3: E
DNA repair protein REV1: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
E

D
F

E
G

F
B

DNA polymerase zeta catalytic subunit

DNA polymerase zeta processivity subunit

DNA polymerase delta small subunit

DNA polymerase delta subunit 3

DNA repair protein REV1

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