SMTL ID : 5xon.1

RNA Polymerase II elongation complex bound with Spt4/5 and TFIIS

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-mer

Ligands

10 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.67, C.70, C.77, H.80 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.67, A:C.70, A:C.77, A:H.80 ZN.2: 4 residues within 4Å: Chain A: C.107, C.110, C.148, C.168 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.107, A:C.110, A:C.148, A:C.168 ZN.4: 4 residues within 4Å: Chain B: C.1163, C.1166, C.1182, C.1185 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.1163, B:C.1166, B:C.1182 ZN.5: 4 residues within 4Å: Chain C: C.85, C.87, C.91, C.94 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.85, C:C.87, C:C.91, C:C.94 ZN.6: 4 residues within 4Å: Chain I: C.75, C.78, C.103, C.106 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.75, I:C.78, I:C.103, I:C.106 ZN.7: 5 residues within 4Å: Chain I: C.7, E.9, C.10, C.29, C.32 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:C.7, I:C.29 ZN.8: 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.9: 6 residues within 4Å: Chain L: C.33, C.36, C.50, E.52, C.53, G.54 2 PLIP interactions: 2 interactions with chain L Metal complexes: L:C.36, L:C.50 ZN.10: 6 residues within 4Å: Chain P: C.152, K.154, C.155, C.180, C.183, N.185 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:C.152, P:C.155, P:C.183 ZN.11: 4 residues within 4Å: Chain Q: C.6, C.9, C.23, C.26 4 PLIP interactions: 4 interactions with chain Q Metal complexes: Q:C.6, Q:C.9, Q:C.23, Q:C.26

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.482, D.484, D.486 Chain M: U.30 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.482, A:D.484, A:D.486, A:D.486

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ehara, H. et al., Structure of the complete elongation complex of RNA polymerase II with basal factors. Science (2017)

Release Date

2017-08-16

Peptides

DNA-directed RNA polymerase subunit: A
DNA-directed RNA polymerase subunit beta: B
RNA polymerase II third largest subunit B44, part of central core: C
RNA polymerase II subunit B32: D
RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III: E
RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III: F
RNA polymerase II subunit: G
RNA polymerase subunit ABC14.5, common to RNA polymerases I, II, and III: H
DNA-directed RNA polymerase subunit: I
RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III: J
RNA polymerase II subunit B12.5: K
RNA polymerase subunit, found in RNA polymerase complexes I, II, and III: L
General transcription elongation factor TFIIS: P
Transcription elongation factor SPT4: Q
Protein that forms a complex with Spt4p: R

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

P
U

Q
V

R
W

DNA-directed RNA polymerase subunit

DNA-directed RNA polymerase subunit beta

RNA polymerase II third largest subunit B44, part of central core

RNA polymerase II subunit B32

RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III

RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III

RNA polymerase II subunit

RNA polymerase subunit ABC14.5, common to RNA polymerases I, II, and III

DNA-directed RNA polymerase subunit

RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III

RNA polymerase II subunit B12.5

RNA polymerase subunit, found in RNA polymerase complexes I, II, and III

General transcription elongation factor TFIIS

Transcription elongation factor SPT4

Protein that forms a complex with Spt4p

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