SMTL ID : 6knc.1

PolD-PCNA-DNA (form B)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-3-mer

Ligands

1 x FE: FE (III) ION(Non-covalent)

FE.1: 3 residues within 4Å: Chain A: D.275, H.277, H.477 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.275, A:H.277, A:H.477

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: D.275, D.319, H.412, H.475 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.275, A:D.319, A:H.412, A:H.475 ZN.3: 5 residues within 4Å: Chain B: C.715, C.718, C.727, C.730, T.732 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.715, B:C.718, B:C.727, B:C.730 ZN.4: 4 residues within 4Å: Chain B: C.1131, C.1134, C.1147, C.1150 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.1131, B:C.1147, B:C.1150 ZN.5: 4 residues within 4Å: Chain B: C.740, C.743, C.759, C.762 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.740, B:C.743, B:C.759, B:C.762

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mayanagi, K. et al., Two conformations of DNA polymerase D-PCNA-DNA, an archaeal replisome complex, revealed by cryo-electron microscopy. Bmc Biol. (2020)

Release Date

2020-08-05

Peptides

DNA polymerase II small subunit: A
DNA polymerase D DP2 (DNA polymerase II large) subunit: B
DNA polymerase sliding clamp 1: CDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

DNA polymerase II small subunit

DNA polymerase D DP2 (DNA polymerase II large) subunit

DNA polymerase sliding clamp 1

Related Entries With Identical Sequence