SMTL ID : 8tvx.1

Cryo-EM structure of CPD-stalled Pol II (Conformation 2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: C.107, C.110, C.148, C.167, G.168, N.169, Q.171 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.107, A:C.148, A:C.167 ZN.2: 7 residues within 4Å: Chain A: G.59, C.67, C.70, C.77, P.78, G.79, H.80 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.77, A:P.78, A:H.80 ZN.4: 5 residues within 4Å: Chain B: C.1163, I.1165, C.1166, C.1182, C.1185 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.1163, B:C.1166, B:C.1182, B:C.1185 ZN.5: 8 residues within 4Å: Chain C: C.86, C.88, H.91, C.92, D.93, K.94, C.95, S.96 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.92, C:C.92, C:C.95 ZN.6: 4 residues within 4Å: Chain I: C.7, C.10, T.31, C.32 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:T.31 ZN.7: 7 residues within 4Å: Chain I: C.75, C.78, C.103, S.105, C.106, S.107, H.108 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.78, I:C.103, I:S.105, I:C.106 ZN.8: 7 residues within 4Å: Chain J: C.7, S.9, C.10, R.43, C.45, C.46, M.49 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.7, J:C.10, J:C.45, J:C.46 ZN.9: 5 residues within 4Å: Chain L: C.31, A.32, E.33, C.34, C.51 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:C.31, L:C.31, L:A.32, L:C.34, L:C.51

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: R.446, D.481, D.483, D.485 Chain O: A.10 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.483, A:D.483, A:D.485, A:D.485

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sarsam, R.D. et al., Elf1 promotes Rad26's interaction with lesion-arrested Pol II for transcription-coupled repair. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2024-01-24

Peptides

DNA-directed RNA polymerase II subunit RPB1: A
DNA-directed RNA polymerase subunit beta: B
DNA-directed RNA polymerase II subunit RPB3: C
DNA-directed RNA polymerase II subunit RPB4: D
DNA-directed RNA polymerases I, II, and III subunit RPABC1: E
DNA-directed RNA polymerases I, II, and III subunit RPABC2: F
DNA-directed RNA polymerase II subunit RPB7: G
DNA-directed RNA polymerases I, II, and III subunit RPABC3: H
DNA-directed RNA polymerase II subunit RPB9: I
DNA-directed RNA polymerases II subunit RPABC5: J
DNA-directed RNA polymerase II subunit RPB11: K
DNA-directed RNA polymerases II subunit RPABC4: L

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

DNA-directed RNA polymerase II subunit RPB1

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase II subunit RPB3

DNA-directed RNA polymerase II subunit RPB4

DNA-directed RNA polymerases I, II, and III subunit RPABC1

DNA-directed RNA polymerases I, II, and III subunit RPABC2

DNA-directed RNA polymerase II subunit RPB7

DNA-directed RNA polymerases I, II, and III subunit RPABC3

DNA-directed RNA polymerase II subunit RPB9

DNA-directed RNA polymerases II subunit RPABC5

DNA-directed RNA polymerase II subunit RPB11

DNA-directed RNA polymerases II subunit RPABC4

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