SMTL ID : 5w65.1

RNA polymerase I Initial Transcribing Complex State 2

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-mer

Ligands

1 x A- U- G- C- G- A: RNA(Non-covalent)

A-U-G-C-G-A.1: 21 residues within 4Å: Chain A: Q.592, D.629, G.630, D.631 Chain B: R.204, R.495, P.538, Q.720, M.721, K.723, Q.724, K.916, K.924, H.1038 Chain S: T.16, C.17, G.18, C.19, A.20, T.21, G.22 Protein-ligand interaction information (PLIP) not available

7 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.102, C.105, H.107, C.233, C.236 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.102, A:C.105, A:C.233, A:C.236 ZN.3: 6 residues within 4Å: Chain A: C.62, T.64, C.65, G.66, 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.4: 5 residues within 4Å: Chain B: C.1104, C.1107, C.1128, R.1130, 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: 5 residues within 4Å: Chain I: C.10, C.13, C.30, Q.32, 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 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.7, J:C.10, J:C.45, J:C.46 ZN.7: 5 residues within 4Å: Chain L: C.31, E.33, C.34, C.48, C.51 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.31, L:C.34, L:C.48, L:C.51 ZN.8: 4 residues within 4Å: Chain P: C.10, C.15, C.29, H.33 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:C.10, P:C.15, P:C.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, Y. et al., Structural mechanism of ATP-independent transcription initiation by RNA polymerase I. Elife (2017)

Release Date

2017-08-02

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 RRN6: O
RNA polymerase I-specific transcription initiation factor RRN7: P
RNA polymerase I-specific transcription initiation factor RRN11: Q

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

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 RRN6

RNA polymerase I-specific transcription initiation factor RRN7

RNA polymerase I-specific transcription initiation factor RRN11

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