SMTL ID : 7eg9.1

TFIID-based intermediate PIC on SCP promoter

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

10 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain N: H.18, P.19, D.20, C.34, E.36 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:H.18, N:C.34, N:E.36 ZN.2: 5 residues within 4Å: Chain Q: C.129, C.132, C.154, F.156, C.157 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:C.132, Q:C.154, Q:C.157 ZN.3: 5 residues within 4Å: Chain 3: G.63, C.71, C.74, C.81, H.84 2 PLIP interactions: 2 interactions with chain 3 Metal complexes: 3:C.71, 3:C.81 ZN.4: 5 residues within 4Å: Chain 3: C.111, C.114, K.116, C.154, C.184 1 PLIP interactions: 1 interactions with chain 3 Metal complexes: 3:C.114 ZN.6: 5 residues within 4Å: Chain 4: C.1119, L.1121, C.1122, C.1137, C.1140 4 PLIP interactions: 4 interactions with chain 4 Metal complexes: 4:C.1119, 4:C.1122, 4:C.1137, 4:C.1140 ZN.7: 4 residues within 4Å: Chain 5: C.90, F.93, C.94, C.97 3 PLIP interactions: 3 interactions with chain 5 Metal complexes: 5:C.90, 5:C.94, 5:C.97 ZN.8: 4 residues within 4Å: Chain a: C.17, C.20, C.39, C.42 4 PLIP interactions: 4 interactions with chain a Metal complexes: a:C.17, a:C.20, a:C.39, a:C.42 ZN.9: 4 residues within 4Å: Chain a: C.86, C.89, C.114, C.119 4 PLIP interactions: 4 interactions with chain a Metal complexes: a:C.86, a:C.89, a:C.114, a:C.119 ZN.10: 4 residues within 4Å: Chain b: C.7, C.10, C.44, C.45 4 PLIP interactions: 4 interactions with chain b Metal complexes: b:C.7, b:C.10, b:C.44, b:C.45 ZN.11: 4 residues within 4Å: Chain d: C.19, C.22, C.36, C.39 3 PLIP interactions: 3 interactions with chain d Metal complexes: d:C.19, d:C.22, d:C.36

1 x MG: MAGNESIUM ION(Non-covalent)

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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Structural insights into preinitiation complex assembly on core promoters. Science (2021)

Release Date

2021-05-05

Peptides

Transcription initiation factor TFIID subunit 1: A
Transcription initiation factor TFIID subunit 2: B
Transcription initiation factor TFIID subunit 4: CV
Transcription initiation factor TFIID subunit 5: DW
Transcription initiation factor TFIID subunit 6: EX
Transcription initiation factor TFIID subunit 7: F
Transcription initiation factor TFIID subunit 8: G
Transcription initiation factor TFIID subunit 9: HY
Transcription initiation factor TFIID subunit 10: IZ
Transcription initiation factor TFIID subunit 12: J1
Transcription initiation factor IIA subunit 2: K
TATA-box-binding protein: L
Transcription initiation factor IIA subunit 1: M
Transcription initiation factor IIB: N
General transcription factor IIF subunit 1: O
General transcription factor IIF subunit 2: P
General transcription factor IIE subunit 1: Q
Transcription initiation factor IIE subunit beta: R
Transcription initiation factor TFIID subunit 3: U
Transcription initiation factor TFIID subunit 11: 0
Transcription initiation factor TFIID subunit 13: 2
RPB1: 3
DNA-directed RNA polymerase subunit beta: 4
DNA-directed RNA polymerase II subunit RPB3: 5
DNA-directed RNA polymerase II subunit RPB4: 6
DNA-directed RNA polymerase II subunit E: 7
DNA-directed RNA polymerase II subunit F: 8
DNA-directed RNA polymerases I, II, and III subunit RPABC3: 9
DNA-directed RNA polymerase II subunit RPB9: a
RPB10: b
RNA_pol_L_2 domain-containing protein: c
RPB12: d
DNA-directed RNA polymerase II subunit RPB7: e

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

V
d

D
E

W
e

E
F

X
f

F
G

G
H

H
I

Y
i

I
J

Z
j

J
L

1
l

K
O

L
P

M
Q

N
R

O
S

P
T

Q
U

R
V

U
c

0
k

2
m

3
o

4
p

5
q

6
r

7
s

8
t

9
v

a
w

b
x

c
y

d
z

e
u

Transcription initiation factor TFIID subunit 1

Transcription initiation factor TFIID subunit 2

Transcription initiation factor TFIID subunit 4

Transcription initiation factor TFIID subunit 5

Transcription initiation factor TFIID subunit 6

Transcription initiation factor TFIID subunit 7

Transcription initiation factor TFIID subunit 8

Transcription initiation factor TFIID subunit 9

Transcription initiation factor TFIID subunit 10

Transcription initiation factor TFIID subunit 12

Transcription initiation factor IIA subunit 2

TATA-box-binding protein

Transcription initiation factor IIA subunit 1

Transcription initiation factor IIB

General transcription factor IIF subunit 1

General transcription factor IIF subunit 2

General transcription factor IIE subunit 1

Transcription initiation factor IIE subunit beta

Transcription initiation factor TFIID subunit 3

Transcription initiation factor TFIID subunit 11

Transcription initiation factor TFIID subunit 13

RPB1

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase II subunit RPB3

DNA-directed RNA polymerase II subunit RPB4

DNA-directed RNA polymerase II subunit E

DNA-directed RNA polymerase II subunit F

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

DNA-directed RNA polymerase II subunit RPB9

RPB10

RNA_pol_L_2 domain-containing protein

RPB12

DNA-directed RNA polymerase II subunit RPB7

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