SMTL ID : 9bct.1

Cryo-EM structure of Thermococcus kodakarensis FttA-dependent transcription pre-termination complex containing 44 nt RNA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-2-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.461, D.463, D.465 Chain R: C.44 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.461, A:D.463, A:D.465

8 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.60, C.63, C.70, H.73 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.60, A:C.63, A:C.70, A:H.73 ZN.3: 4 residues within 4Å: Chain A: C.100, C.103, C.147, C.150 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.100, A:C.147, A:C.150 ZN.4: 4 residues within 4Å: Chain B: C.1065, C.1068, C.1083, C.1086 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.1065, B:C.1068, B:C.1083, B:C.1086 ZN.5: 4 residues within 4Å: Chain J: C.7, C.10, C.44, C.45 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.7, J:C.10, J:C.44, J:C.45 ZN.6: 4 residues within 4Å: Chain K: C.8, C.11, C.27, C.30 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.8, K:C.11, K:C.27, K:C.30 ZN.7: 4 residues within 4Å: Chain M: C.13, C.16, C.25, C.28 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.13, M:C.16, M:C.25, M:C.28 ZN.8: 5 residues within 4Å: Chain N: H.253, D.257, H.258, D.364, H.615 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:D.257, N:H.258, N:D.364, N:H.615 ZN.9: 5 residues within 4Å: Chain O: H.253, D.257, H.258, D.364, H.615 5 PLIP interactions: 5 interactions with chain O Metal complexes: O:D.257, O:H.258, O:D.364, O:D.364, O:H.615

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

You, L. et al., Structural basis of archaeal FttA-dependent transcription termination. Nature (2024)

Release Date

2024-07-31

Peptides

DNA-directed RNA polymerase subunit A': A
DNA-directed RNA polymerase subunit B: B
DNA-directed RNA polymerase subunit A": C
DNA-directed RNA polymerase subunit D: D
DNA-directed RNA polymerase subunit E: E
DNA-directed RNA polymerase subunit F: F
DNA-directed RNA polymerase subunit H: G
DNA-directed RNA polymerase subunit K: H
DNA-directed RNA polymerase subunit L: I
DNA-directed RNA polymerase subunit N: J
DNA-directed RNA polymerase subunit P: K
Transcription elongation factor Spt5: L
Transcription elongation factor Spt4: M
Transcription termination factor FttA: NO

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
H

H
K

I
L

J
N

K
P

L
G

M
I

N
J

O
M

DNA-directed RNA polymerase subunit A'

DNA-directed RNA polymerase subunit B

DNA-directed RNA polymerase subunit A"

DNA-directed RNA polymerase subunit D

DNA-directed RNA polymerase subunit E

DNA-directed RNA polymerase subunit F

DNA-directed RNA polymerase subunit H

DNA-directed RNA polymerase subunit K

DNA-directed RNA polymerase subunit L

DNA-directed RNA polymerase subunit N

DNA-directed RNA polymerase subunit P

Transcription elongation factor Spt5

Transcription elongation factor Spt4

Transcription termination factor FttA

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