SMTL ID : 5m3m.1

Free monomeric RNA polymerase I at 4.0A resolution

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-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: 6 residues within 4Å: Chain A: C.65, L.67, F.71, C.72, P.73, H.75 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.65, A:C.72 ZN.2: 6 residues within 4Å: Chain A: C.102, L.103, F.104, C.105, H.106, H.107 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.102 ZN.4: 5 residues within 4Å: Chain B: C.1104, R.1105, E.1106, C.1107, E.1172 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:C.1104, B:E.1172 ZN.5: 4 residues within 4Å: Chain G: C.10, L.11, D.12, C.13 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.10, G:C.10, G:C.13 ZN.6: 5 residues within 4Å: Chain G: C.86, M.94, C.114, C.117, Y.119 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:C.86, G:Y.119 ZN.7: 4 residues within 4Å: Chain H: C.7, C.10, C.45, C.46 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:C.7, H:C.10, H:C.45, H:C.45, H:C.46 ZN.8: 5 residues within 4Å: Chain J: C.31, C.34, C.48, C.51, H.53 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.31, J:C.34, J:C.48, J:C.51

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 5 residues within 4Å: Chain B: H.532, S.698, I.699, L.700, A.701 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.698, B:I.699, B:L.700, B:A.701 Salt bridges: B:H.532

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Neyer, S. et al., Structure of RNA polymerase I transcribing ribosomal DNA genes. Nature (2016)

Release Date

2016-11-23

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 polymerases I, II, and III subunit RPABC1: D
DNA-directed RNA polymerases I, II, and III subunit RPABC2: E
DNA-directed RNA polymerases I, II, and III subunit RPABC3: F
DNA-directed RNA polymerase I subunit RPA12: G
DNA-directed RNA polymerases I, II, and III subunit RPABC5: H
DNA-directed RNA polymerases I and III subunit RPAC2: I
DNA-directed RNA polymerases I, II, and III subunit RPABC4: J
DNA-directed RNA polymerase I subunit RPA49: K
DNA-directed RNA polymerase I subunit RPA34: L
DNA-directed RNA polymerase I subunit RPA14: M
DNA-directed RNA polymerase I subunit RPA43: N

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
E

E
F

F
H

G
I

H
J

I
K

J
L

K
M

L
N

M
D

N
G

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 polymerases I, II, and III subunit RPABC1

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

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

DNA-directed RNA polymerase I subunit RPA14

DNA-directed RNA polymerase I subunit RPA43

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