SMTL ID : 5vvs.1

RNA pol II elongation complex

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: 5 residues within 4Å: Chain A: C.107, M.108, H.109, C.110, C.148 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.107, A:C.107, A:M.108, A:C.110 ZN.2: 4 residues within 4Å: Chain A: C.67, E.72, C.77, P.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.67, A:E.72, A:C.77, A:P.78 ZN.3: 6 residues within 4Å: Chain B: C.1163, I.1165, C.1166, L.1168, T.1170, C.1182 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.1163, B:C.1163, B:C.1166 ZN.4: 5 residues within 4Å: Chain C: C.86, C.88, C.92, D.93, K.94 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:C.86, C:D.93 ZN.5: 4 residues within 4Å: Chain I: N.12, M.13, C.29, C.32 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:C.29, I:C.32 ZN.6: 4 residues within 4Å: Chain I: C.103, S.105, C.106, F.110 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:C.106 ZN.7: 5 residues within 4Å: Chain J: C.7, S.9, C.10, C.45, C.46 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:C.7, J:S.9, J:S.9, J:C.10, J:C.45 ZN.8: 6 residues within 4Å: Chain L: C.31, A.32, E.33, C.34, S.36, C.51 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:C.31, L:A.32, L:C.34, L:C.34, L:C.51

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 3 residues within 4Å: Chain A: R.446, D.481 Chain M: A.10 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, J. et al., Structural basis for the initiation of eukaryotic transcription-coupled DNA repair. Nature (2017)

Release Date

2017-11-22

Peptides

DNA-directed RNA polymerase II subunit RPB1: A
DNA-directed RNA polymerase II subunit RPB2: 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 I, II, and III subunit RPABC5: J
DNA-directed RNA polymerase II subunit RPB11: K
DNA-directed RNA polymerases I, II, and III 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 II subunit RPB2

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 I, II, and III subunit RPABC5

DNA-directed RNA polymerase II subunit RPB11

DNA-directed RNA polymerases I, II, and III subunit RPABC4

Related Entries With Identical Sequence