SMTL ID : 9rtt.1

Activated Elongation Complex with IWS1 and ELOF1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

9 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain F: C.17, C.20, C.39, C.42 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.17, F:C.20, F:C.39, F:C.42 ZN.2: 4 residues within 4Å: Chain F: C.86, C.89, C.114, C.119 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.86, F:C.89, F:C.114, F:C.119 ZN.3: 4 residues within 4Å: Chain G: C.7, C.10, C.44, C.45 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.7, G:C.10, G:C.44, G:C.45 ZN.4: 7 residues within 4Å: Chain I: C.19, C.22, C.36, E.38, C.39, G.40, Y.41 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.22, I:C.36, I:E.38, I:C.39 ZN.5: 4 residues within 4Å: Chain N: C.20, C.23, C.37, C.40 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.20, N:C.23, N:C.37, N:C.40 ZN.6: 4 residues within 4Å: Chain P: C.71, C.74, C.81, H.84 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:C.71, P:C.74, P:H.84 ZN.7: 4 residues within 4Å: Chain P: C.111, C.114, C.154, C.184 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:C.111, P:C.114, P:C.154, P:C.184 ZN.9: 4 residues within 4Å: Chain Q: C.1119, C.1122, C.1137, C.1140 4 PLIP interactions: 4 interactions with chain Q Metal complexes: Q:C.1119, Q:C.1122, Q:C.1137, Q:C.1140 ZN.10: 4 residues within 4Å: Chain R: C.88, C.90, C.94, C.97 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:C.88, R:C.90, R:C.94, R:C.97

1 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 4 residues within 4Å: Chain J: A.21 Chain P: D.495, D.497, D.499 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:D.495, P:D.495, P:D.497, P:D.497, P:D.499

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheenbekova, A. et al., IWS1 positions downstream DNA to globally stimulate Pol II elongation. Nat Commun (2025)

Release Date

2025-09-03

Peptides

RNA polymerase II subunit D: A
DNA-directed RNA polymerase II subunit E: B
DNA-directed RNA polymerases I, II, and III subunit RPABC2: C
DNA-directed RNA polymerase II subunit RPB7: D
DNA-directed RNA polymerases I, II, and III subunit RPABC3: E
DNA-directed RNA polymerase II subunit RPB9: F
DNA-directed RNA polymerases I, II, and III subunit RPABC5: G
DNA-directed RNA polymerase II subunit RPB11-a: H
RNA polymerase II subunit K: I
RNA polymerase-associated protein CTR9 homolog: K
Superkiller complex protein 8: M
Transcription elongation factor SPT4: N
Transcription elongation factor 1 homolog: O
DNA-directed RNA polymerase subunit: P
DNA-directed RNA polymerase subunit beta: Q
DNA-directed RNA polymerase II subunit RPB3: R
Transcription elongation factor SPT6: S
RNA polymerase-associated protein LEO1: U
RNA polymerase II-associated factor 1 homolog: V
Parafibromin: W
Transcription elongation factor SPT5: X
Protein IWS1 homolog: Y

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

D
G

E
H

F
I

G
J

H
K

I
L

K
Q

M
W

N
Y

O
b

P
A

Q
B

R
C

S
M

U
U

V
V

W
X

X
Z

Y
a

RNA polymerase II subunit D

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

DNA-directed RNA polymerase II subunit RPB11-a

RNA polymerase II subunit K

RNA polymerase-associated protein CTR9 homolog

Superkiller complex protein 8

Transcription elongation factor SPT4

Transcription elongation factor 1 homolog

DNA-directed RNA polymerase subunit

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase II subunit RPB3

Transcription elongation factor SPT6

RNA polymerase-associated protein LEO1

RNA polymerase II-associated factor 1 homolog

Parafibromin

Transcription elongation factor SPT5

Protein IWS1 homolog

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