SMTL ID : 8uis.1

Structure of transcription complex Pol II-DSIF-NELF-TFIIS

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain F: G.63, C.71, T.73, C.74, C.81, H.84 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:C.71, F:C.74, F:C.81 ZN.2: 7 residues within 4Å: Chain F: C.111, F.113, C.114, C.154, C.184, G.185, Q.188 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.111, F:C.114, F:C.154, F:C.184 ZN.4: 5 residues within 4Å: Chain G: C.1119, L.1121, C.1122, C.1137, C.1140 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.1122, G:C.1137, G:C.1140 ZN.5: 5 residues within 4Å: Chain H: C.88, C.90, F.93, C.94, C.97 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.88, H:C.90, H:C.94, H:C.97 ZN.6: 6 residues within 4Å: Chain N: C.17, E.19, C.20, C.39, C.42, Y.44 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:C.17, N:C.20, N:C.39 ZN.7: 7 residues within 4Å: Chain N: C.86, C.89, H.91, C.114, A.116, C.119, H.121 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.86, N:C.89, N:C.114, N:C.119 ZN.8: 7 residues within 4Å: Chain O: C.7, T.9, C.10, K.12, R.42, C.44, C.45 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:C.7, O:C.10, O:C.44, O:C.45 ZN.9: 7 residues within 4Å: Chain Q: C.19, E.21, C.22, T.24, C.36, C.39, Y.41 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:C.19, Q:C.22, Q:C.36

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain B: G.22 Chain F: D.495, D.497, G.498, D.499 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:D.497, F:D.497, F:D.499

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, B.G. et al., Distinct negative elongation factor conformations regulate RNA polymerase II promoter-proximal pausing. Mol.Cell (2024)

Release Date

2024-03-20

Peptides

Negative elongation factor C/D: D
Transcription elongation factor SPT5: E
DNA-directed RNA polymerase subunit: F
DNA-directed RNA polymerase subunit beta: G
DNA-directed RNA polymerase II subunit RPB3: H
RNA polymerase Rpb4/RPC9 core domain-containing protein: I
DNA-directed RNA polymerase II subunit E: J
DNA-directed RNA polymerases I, II, and III subunit RPABC2: K
DNA-directed RNA polymerase II subunit RPB7: L
DNA-directed RNA polymerases I, II, and III subunit RPABC3: M
DNA-directed RNA polymerase II subunit RPB9: N
DNA-directed RNA polymerases I, II, and III subunit RPABC5: O
RNA polymerase II subunit J: P
RNA polymerase II subunit K: Q
Transcription elongation factor A protein 1: R
Negative elongation factor A: S

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
W

E
Z

F
A

G
B

H
C

I
D

J
E

K
F

L
G

M
H

N
I

O
J

P
K

Q
L

R
S

S
U

Negative elongation factor C/D

Transcription elongation factor SPT5

DNA-directed RNA polymerase subunit

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase II subunit RPB3

RNA polymerase Rpb4/RPC9 core domain-containing protein

DNA-directed RNA polymerase II subunit E

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 I, II, and III subunit RPABC5

RNA polymerase II subunit J

RNA polymerase II subunit K

Transcription elongation factor A protein 1

Negative elongation factor A

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