SMTL ID : 7mk9.1

Complex structure of trailing EC of EC+EC (trailing EC-focused)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain C: C.107, C.110, C.148, C.167 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.107, C:C.110, C:C.148, C:C.167 ZN.2: 5 residues within 4Å: Chain C: C.67, Q.68, C.70, C.77, H.80 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:C.67, C:C.67, C:C.70, C:C.77, C:H.80 ZN.4: 5 residues within 4Å: Chain D: C.1163, C.1166, T.1170, C.1182, C.1185 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.1163, D:C.1166, D:C.1182 ZN.5: 4 residues within 4Å: Chain E: C.86, C.88, C.92, C.95 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.86, E:C.88, E:C.92, E:C.95 ZN.6: 4 residues within 4Å: Chain K: C.7, C.10, C.29, C.32 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.7, K:C.10, K:C.29, K:C.32 ZN.7: 4 residues within 4Å: Chain K: C.75, K.77, C.78, C.106 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.75, K:C.78, K:C.106 ZN.8: 4 residues within 4Å: Chain L: C.7, C.10, C.45, C.46 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.7, L:C.10, L:C.45, L:C.46 ZN.9: 6 residues within 4Å: Chain N: C.31, A.32, C.34, C.48, D.50, C.51 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.31, N:C.48, N:D.50, N:C.51

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain C: L.860, T.1394, G.1395 No protein-ligand interaction detected (PLIP) MG.10: 5 residues within 4Å: Chain C: D.481, D.483, D.485 Chain O: A.9, U.10 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.481, C:D.481, C:D.483, C:D.483, C:D.485

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, C. et al., Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Mol.Cell (2022)

Release Date

2022-04-27

Peptides

DNA-directed RNA polymerase subunit: C
DNA-directed RNA polymerase subunit beta: D
DNA-directed RNA polymerase II subunit RPB3: E
DNA-directed RNA polymerase II subunit RPB4: F
DNA-directed RNA polymerases I, II, and III subunit RPABC1: G
DNA-directed RNA polymerases I,II,and III subunit RPABC2: H
DNA-directed RNA polymerase II subunit RPB7: I
DNA-directed RNA polymerases I, II, and III subunit RPABC3: J
DNA-directed RNA polymerase II subunit RPB9: K
DNA-directed RNA polymerases II subunit RPABC5: L
DNA-directed RNA polymerase II subunit RPB11: M
DNA-directed RNA polymerases II subunit RPABC4: N
Transcription initiation factor IIF subunit alpha: P
Transcription initiation factor IIF subunit beta: Q

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

E
C

F
D

G
E

H
F

I
G

J
H

K
I

L
J

M
K

N
L

P
Q

Q
M

DNA-directed RNA polymerase subunit

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

Transcription initiation factor IIF subunit alpha

Transcription initiation factor IIF subunit beta

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