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MolNFT v1 · #153148 · protein + DNA + RNA

RNA polymerase II elongation complex bound with SPT4/5 and foreign DNA, stalled at shl(-1) of the nucleosome

6J4Z: “RNA polymerase II elongation complex bound with SPT4/5 and foreign DNA, stalled at shl(-1) of the nucleosome”. Electron microscopy, 2 ligands (ZN, MG). MolNFT v1 #153148 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
6J4Z
Type
protein + DNA + RNA
Length
5,412 residues
Chains
27
Method
electron microscopy
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4R0E6, C4R370, P84243, P62805, P04908, P06899
Ligands
ZN, MG

Structure

electron microscopy · 27 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein1414—C4R4Y0
B—protein1157—C4QZQ7
C—protein263—C4R7L2
D—protein168—C4R2U9
E—protein213—C4R3P8
F—protein84—C4R1V1
G—protein171—C4R9A1
H—protein133—C4R273
I—protein111—F2QPE6
J—protein66—C4R009
K—protein113—C4R3Z5
L—protein45—F2QMI1
P—rna16——
T—dna128——
N—dna123——
V—protein102—C4R0E6
W—protein275—C4R370
a—protein97—P84243
b—protein80—P62805
c—protein103—P04908
d—protein95—P06899
e—protein97—P84243
f—protein78—P62805
g—protein105—P04908
h—protein91—P06899
0—dna42——
1—dna42——

Ligands and binding sites

  • ZN · Zinc ion · metal · 9 copies · chains A, B, C, I, J, L, V
  • MG · Magnesium ion · metal · chains A, P

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

Compared structures

  • 6J4Z · RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at… · the same entry in another collection · chain A against A, TM-score 1.00

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