SMTL ID : 6gmh.1

Structure of activated transcription complex Pol II-DSIF-PAF-SPT6

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-mer

Ligands

9 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.71, T.73, C.74, C.81, P.82, H.84 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.71, A:C.74, A:H.84 ZN.2: 5 residues within 4Å: Chain A: C.111, C.114, K.116, C.184, Y.187 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.111, A:C.114 ZN.4: 4 residues within 4Å: Chain B: C.1119, C.1122, C.1137, C.1140 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.1119, B:C.1122, B:C.1137 ZN.5: 4 residues within 4Å: Chain C: C.88, C.90, C.94, C.97 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.88, C:C.90, C:C.94, C:C.97 ZN.6: 4 residues within 4Å: Chain I: C.17, C.20, C.39, C.42 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.17, I:C.20, I:C.39, I:C.42 ZN.7: 5 residues within 4Å: Chain I: C.86, C.89, H.91, C.114, C.119 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.86, I:C.89, I:C.114, I:C.119 ZN.8: 4 residues within 4Å: Chain J: C.7, C.10, C.44, C.45 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:C.7, J:C.44, J:C.45 ZN.9: 5 residues within 4Å: Chain L: C.19, C.22, C.36, E.38, C.39 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:C.19, L:C.22, L:C.36, L:E.38, L:C.39 ZN.10: 4 residues within 4Å: Chain V: C.20, C.23, C.37, C.40 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:C.20, V:C.23, V:C.37, V:C.40

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: D.495, D.497, D.499 Chain O: U.46 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.495, A:D.497, A:D.497

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vos, S.M. et al., Structure of activated transcription complex Pol II-DSIF-PAF-SPT6. Nature (2018)

Release Date

2018-08-22

Peptides

RPB1: A
DNA-directed RNA polymerase subunit beta: B
RNA polymerase II subunit C: C
RNA polymerase II subunit D: D
RNA polymerase II subunit E: E
RNA polymerase II subunit F: F
RNA polymerase II subunit G: G
DNA-directed RNA polymerases I, II, and III subunit RPABC3: H
DNA-directed RNA polymerase II subunit RPB9: I
RPB10: J
RPB11: K
RPB12: L
Transcription elongation factor SPT6,Transcription elongation factor SPT6,Transcription elongation factor SPT6: M
CTR9,RNA polymerase-associated protein CTR9 homolog,RNA polymerase-associated protein CTR9 homolog: P
LEO1,LEO1,RNA polymerase-associated protein LEO1: R
PAF1,RNA polymerase II-associated factor 1 homolog,RNA polymerase II-associated factor 1 homolog: S
WD repeat-containing protein 61: T
CDC73: U
Transcription elongation factor SPT4: V
Transcription elongation factor SPT5: W

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

M
M

P
Q

R
U

S
V

T
W

U
X

V
Y

W
Z

RPB1

DNA-directed RNA polymerase subunit beta

RNA polymerase II subunit C

RNA polymerase II subunit D

RNA polymerase II subunit E

RNA polymerase II subunit F

RNA polymerase II subunit G

DNA-directed RNA polymerases I, II, and III subunit RPABC3

DNA-directed RNA polymerase II subunit RPB9

RPB10

RPB11

RPB12

Transcription elongation factor SPT6,Transcription elongation factor SPT6,Transcription elongation factor SPT6

CTR9,RNA polymerase-associated protein CTR9 homolog,RNA polymerase-associated protein CTR9 homolog

LEO1,LEO1,RNA polymerase-associated protein LEO1

PAF1,RNA polymerase II-associated factor 1 homolog,RNA polymerase II-associated factor 1 homolog

WD repeat-containing protein 61

CDC73

Transcription elongation factor SPT4

Transcription elongation factor SPT5

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