SMTL ID : 7ozp.1

RNA Polymerase II dimer (Class 3)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

10 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain C: C.88, C.90, C.94, E.96, C.97 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.88, C:C.90, C:C.94, C:C.97 ZN.2: 6 residues within 4Å: Chain I: C.17, C.20, N.22, C.39, N.41, C.42 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.17, I:C.20, I:C.39, I:C.42 ZN.3: 4 residues within 4Å: Chain I: C.86, C.89, C.114, C.119 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.86, I:C.89, I:C.114, I:C.119 ZN.4: 4 residues within 4Å: Chain J: C.7, C.10, C.44, C.45 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.7, J:C.10, J:C.44, J:C.45 ZN.5: 4 residues within 4Å: Chain L: C.19, C.22, C.36, C.39 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.19, L:C.22, L:C.36, L:C.39 ZN.6: 5 residues within 4Å: Chain O: C.88, C.90, C.94, E.96, C.97 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:C.88, O:C.90, O:C.94, O:C.97 ZN.7: 6 residues within 4Å: Chain U: C.17, C.20, N.22, C.39, N.41, C.42 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.17, U:C.20, U:C.39, U:C.42 ZN.8: 4 residues within 4Å: Chain U: C.86, C.89, C.114, C.119 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:C.86, U:C.89, U:C.114, U:C.119 ZN.9: 4 residues within 4Å: Chain V: C.7, C.10, C.44, C.45 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:C.7, V:C.10, V:C.44, V:C.45 ZN.10: 4 residues within 4Å: Chain X: C.19, C.22, C.36, C.39 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:C.19, X:C.22, X:C.36, X:C.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aibara, S. et al., Structure of an inactive RNA polymerase II dimer. Nucleic Acids Res. (2021)

Release Date

2021-10-06

Peptides

DNA-directed RNA polymerase subunit: AM
DNA-directed RNA polymerase subunit beta: BN
DNA-directed RNA polymerase II subunit RPB3: CO
RNA polymerase II subunit D: DP
DNA-directed RNA polymerase II subunit E: EQ
DNA-directed RNA polymerase II subunit F: FR
DNA-directed RNA polymerase II subunit RPB7: GS
DNA-directed RNA polymerases I, II, and III subunit RPABC3: HT
DNA-directed RNA polymerase II subunit RPB9: IU
DNA-directed RNA polymerases I, II, and III subunit RPABC5: JV
RNA_pol_L_2 domain-containing protein: KW
RNA polymerase II subunit K: LX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M
M

B
B

N
N

C
C

O
O

D
D

P
P

E
E

Q
Q

F
F

R
R

G
G

S
S

H
H

T
T

I
I

U
U

J
J

V
V

K
K

W
W

L
L

X
X

DNA-directed RNA polymerase subunit

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase II subunit RPB3

RNA polymerase II subunit D

DNA-directed RNA polymerase II subunit E

DNA-directed RNA polymerase II subunit F

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 I, II, and III subunit RPABC5

RNA_pol_L_2 domain-containing protein

RNA polymerase II subunit K

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