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MolNFT v2 · #188608 · protein + DNA

Human Mediator with RNA Polymerase II Pre-initiation complex

7NVR: “Human Mediator with RNA Polymerase II Pre-initiation complex”. Electron microscopy at 4.5, 3 ligands (SF4, ZN, MG). MolNFT v2 #188608 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
7NVR
Type
protein + DNA
Length
11,813 residues
Chains
58
Method
electron microscopy
Collection
MolNFT v2 / PDB Bank
Contract
0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner
0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution
4.5
Source
Homo sapiens; Sus scrofa; Trichoplusia ni; SYNTHETIC CONSTRUCT
UniProt
P18074, P32780, Q92759, P51948, Q13889, Q6ZYL4, Q13888, P19447, P50613, P51946, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, F1SKN8, I3LJZ9, A0A4X1ULF2, P60899, A0A4X1VYD0, A0A4X1UK25, I3LN51, Q00403, P20226, P35269, P13984, P52655, P52657, P29083, P29084, O75586, Q96G25, Q9P086, Q9NVC6, Q9BUE0, Q9H944, Q15528, Q9NPJ6, O43513, Q9NWA0, Q9BTT4, O60244, A0JLT2, Q13503, Q9Y3C7, Q6P2C8, Q9H204, Q96HR3
Ligands
SF4, ZN, MG

Structure

electron microscopy · resolution 4.5 · 58 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
0—protein714—P18074
1—protein265—P32780
2—protein390—Q92759
3—protein214—P51948
4—protein263—Q13889
5—protein66—Q6ZYL4
6—protein347—Q13888
7—protein605—P19447
8—protein298—P50613
9—protein281—P51946
A—protein1423——
B—protein1136—I3LGP4
C—protein257—I3LCH3
D—protein128—A0A287ADR4
E—protein209—I3LSI7
F—protein79—F1SKN8
G—protein171—I3LJZ9
H—protein148—A0A4X1ULF2
I—protein114—P60899
J—protein64—A0A4X1VYD0
K—protein115—A0A4X1UK25
L—protein44—I3LN51
M—protein252—Q00403
N—dna64——
O—protein179—P20226
Q—protein138—P35269
R—protein222—P13984
T—dna64——
U—protein113—P52655
V—protein99—P52657
W—protein202—P29083
X—protein171—P29084
Y—protein19——
Z—protein8——
a—protein143—O75586
b—protein136—Q96G25
c—protein109—Q9P086
d—protein439—Q9NVC6
e—protein167—Q9BUE0
f—protein186—Q9H944
g—protein130—Q15528
h—protein138—Q9NPJ6
i—protein113—O43513
j—protein72—Q9NWA0
k—protein133—Q9BTT4
l—protein501—O60244
m—protein84—A0JLT2
n—protein132—Q13503
o—protein91—Q9Y3C7
p—protein154—Q6P2C8
q—protein69—Q9H204
r—protein20——
s—protein44—Q96HR3
v—protein22——
w—protein16——
x—protein11——
y—protein18——
z—protein23——

Ligands and binding sites

  • SF4 · Iron/sulfur cluster · ligand · chains 0
  • ZN · Zinc ion · metal · 18 copies · chains 3, 4, 6, A, B, C, I, J, L, M, W, p
  • MG · Magnesium ion · metal · chains A

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

Compared structures

  • 7NVR · Human mediator with RNA polymerase II pre-initiation complex · the same entry in another collection · chain A against A, TM-score 1.00

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