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MolNFT v1 · #177366 · protein + DNA

Tfiid-based intermediate pic on scp promoter

7EG9: “Tfiid-based intermediate pic on scp promoter”. Electron microscopy, 2 ligands (ZN, MG). MolNFT v1 #177366 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
7EG9
Type
protein + DNA
Length
10,318 residues
Chains
41
Method
electron microscopy
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt
P21675, Q6P1X5, O00268, Q15542, P49848, Q15545, Q7Z7C8, Q16594, Q12962, Q16514, P52657, P20226, P52655, Q00403, P35269, P13984, P29083, P29084, Q5VWG9, Q15544, Q15543, A0A4X1TVZ5, I3LCH3, A0A481BYI6, I3LSI7, A0A4X1VEK9, A0A4X1ULF2, P60899, A0A4X1UK25, A0A4X1TRS6, A0A4X1VKG7
Ligands
ZN, MG

Structure

electron microscopy · 41 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein602—P21675
B—protein963—Q6P1X5
D—protein163—O00268
E—protein546—Q15542
F—protein404—P49848
G—protein145—Q15545
H—protein209—Q7Z7C8
I—protein120—Q16594
J—protein89—Q12962
L—protein76—Q16514
O—protein97—P52657
P—protein177—P20226
Q—protein122—P52655
R—protein248—Q00403
S—protein134—P35269
T—protein103—P13984
U—protein179—P29083
V—protein172—P29084
X—dna71——
Y—dna71——
c—protein127—Q5VWG9
d—protein158—O00268
e—protein539—Q15542
f—protein403—P49848
i—protein121—Q16594
j—protein95—Q12962
k—protein98—Q15544
l—protein107—Q16514
m—protein87—Q15543
o—protein1427——
p—protein1134—A0A4X1TVZ5
q—protein257—I3LCH3
r—protein128—A0A481BYI6
s—protein209—I3LSI7
t—protein79—A0A4X1VEK9
v—protein148—A0A4X1ULF2
w—protein114—P60899
x—protein64——
y—protein117—A0A4X1UK25
z—protein44—A0A4X1TRS6
u—protein171—A0A4X1VKG7

Ligands and binding sites

  • ZN · Zinc ion · metal · 10 copies · chains R, U, o, p, q, w, x, z
  • MG · Magnesium ion · metal · chains o

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

  • Q16514 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 12… · a predicted model of the same protein · chain L against A, TM-score 0.93
  • P60899 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase II subunit RPB9 (P60899) · a predicted model of the same protein · chain w against A, TM-score 0.89
  • Q12962 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 10… · a predicted model of the same protein · chain J against A, TM-score 0.89
  • Q15543 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 13… · a predicted model of the same protein · chain m against A, TM-score 0.88
  • Q15545 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 7… · a predicted model of the same protein · chain G against A, TM-score 0.77
  • P49848 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 6… · a predicted model of the same protein · chain f against A, TM-score 0.63
  • O00268 · AlphaFold monomer V2.0 prediction for transcription initiation factor tfiid subunit 4… · a predicted model of the same protein · chain d against A, TM-score 0.56

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