SMTL ID : 6tps.1

early intermediate RNA Polymerase I Pre-initiation complex - eiPIC

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

7 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.62, T.64, C.65, C.72, H.75 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.62, A:C.65, A:C.72, A:H.75 ZN.2: 1 residues within 4Å: Chain A: C.105 No protein-ligand interaction detected (PLIP) ZN.4: 4 residues within 4Å: Chain B: C.1104, C.1107, C.1128, C.1131 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.1104, B:C.1107, B:C.1128, B:C.1131 ZN.5: 4 residues within 4Å: Chain I: C.10, C.13, C.30, C.33 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.10, I:C.13, I:C.30, I:C.33 ZN.6: 4 residues within 4Å: Chain J: C.7, C.10, C.45, C.46 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:C.7, J:C.10, J:C.45 ZN.7: 4 residues within 4Å: Chain L: C.31, C.34, C.48, C.51 3 PLIP interactions: 3 interactions with chain L Metal complexes: L:C.31, L:C.34, L:C.48 ZN.8: 4 residues within 4Å: Chain Q: C.10, C.15, C.29, H.33 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:C.10, Q:C.15, Q:C.29

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.627, D.629, D.631 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.627, A:D.627, A:D.629, A:D.631

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pilsl, M. et al., Structural basis of RNA polymerase I pre-initiation complex formation and promoter melting. Nat Commun (2020)

Release Date

2020-03-18

Peptides

DNA-directed RNA polymerase I subunit RPA190: A
DNA-directed RNA polymerase I subunit RPA135: B
DNA-directed RNA polymerases I and III subunit RPAC1: C
DNA-directed RNA polymerase I subunit RPA14: 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 I subunit RPA43: G
DNA-directed RNA polymerases I, II, and III subunit RPABC3: H
DNA-directed RNA polymerase I subunit RPA12: I
DNA-directed RNA polymerases I, II, and III subunit RPABC5: J
DNA-directed RNA polymerases I and III subunit RPAC2: K
DNA-directed RNA polymerases I, II, and III subunit RPABC4: L
DNA-directed RNA polymerase I subunit RPA49: M
DNA-directed RNA polymerase I subunit RPA34: N
RNA polymerase I-specific transcription initiation factor RRN3: O
RNA polymerase I-specific transcription initiation factor RRN6: P
RNA polymerase I-specific transcription initiation factor RRN7: Q
RNA polymerase I-specific transcription initiation factor RRN11: R

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

M
M

N
N

O
O

P
P

Q
Q

R
R

DNA-directed RNA polymerase I subunit RPA190

DNA-directed RNA polymerase I subunit RPA135

DNA-directed RNA polymerases I and III subunit RPAC1

DNA-directed RNA polymerase I subunit RPA14

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

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

DNA-directed RNA polymerase I subunit RPA43

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

DNA-directed RNA polymerase I subunit RPA12

DNA-directed RNA polymerases I, II, and III subunit RPABC5

DNA-directed RNA polymerases I and III subunit RPAC2

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

DNA-directed RNA polymerase I subunit RPA49

DNA-directed RNA polymerase I subunit RPA34

RNA polymerase I-specific transcription initiation factor RRN3

RNA polymerase I-specific transcription initiation factor RRN6

RNA polymerase I-specific transcription initiation factor RRN7

RNA polymerase I-specific transcription initiation factor RRN11

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