SMTL ID : 7mka.1

Structure of EC+EC (leading EC-focused)

Coordinates

PDB Format

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: 4 residues within 4Å: Chain C: C.110, C.148, G.166, C.167 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.110, C:C.148, C:C.167 ZN.2: 5 residues within 4Å: Chain C: C.67, Q.68, C.70, H.80 Chain D: I.1172 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.67, C:C.67, C:C.70, C:H.80 ZN.5: 4 residues within 4Å: Chain D: C.1163, C.1166, C.1182, C.1185 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.1163, D:C.1166, D:C.1182, D:C.1185 ZN.6: 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.7: 6 residues within 4Å: Chain K: C.7, D.9, C.10, C.29, T.31, C.32 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:C.7, K:C.10, K:C.29, K:T.31, K:C.32 ZN.8: 6 residues within 4Å: Chain K: C.75, C.78, S.80, C.103, S.105, C.106 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:C.75, K:C.78, K:C.103, K:S.105, K:C.106 ZN.9: 5 residues within 4Å: Chain L: C.7, S.9, 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.10: 4 residues within 4Å: Chain N: C.31, C.34, C.48, C.51 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.31, N:C.34, N:C.48, N:C.51

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain C: D.481, D.483, D.485 Chain O: U.15, C.16 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.481, C:D.483, C:D.483, C:D.485 MG.4: 3 residues within 4Å: Chain C: N.1393, T.1394, G.1395 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.1394

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

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

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

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