MolNFT v1 · #186591 · protein + DNA + RNA
RNA polymerase II elongation complex with hairpin polyamide py-im 1, scaffold 2 soaked with UTP
7RIY: “RNA polymerase II elongation complex with hairpin polyamide py-im 1, scaffold 2 soaked with UTP”. X-ray diffraction, 3 ligands (5N0, ZN, MG). MolNFT v1 #186591 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7RIY
- Type
- protein + DNA + RNA
- Length
- 3,596 residues
- Chains
- 13
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P04050, P08518, P16370, P20434, P20435, P20436, P27999, P22139, P38902, P40422
- Ligands
- 5N0, ZN, MG
Structure
x-ray diffraction · 13 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | — | rna | 11 | — | — |
| T | — | dna | 26 | — | — |
| N | — | dna | 14 | — | — |
| A | — | protein | 1384 | — | P04050 |
| B | — | protein | 1123 | — | P08518 |
| C | — | protein | 267 | — | P16370 |
| E | — | protein | 212 | — | P20434 |
| F | — | protein | 86 | — | P20435 |
| H | — | protein | 133 | — | P20436 |
| I | — | protein | 118 | — | P27999 |
| J | — | protein | 65 | — | P22139 |
| K | — | protein | 114 | — | P38902 |
| L | — | protein | 43 | — | P40422 |
Ligands and binding sites
- 5N0 · 3-({3-[(3-{[4-({4-[(4-{[4-({(2R)-2-amino-4-[(1-methyl-4-{[1-methyl-4-({1-methyl-4-[(1-methyl-1H-imidazole-2-carbonyl)amino]-1H-imidazole-2-carbonyl}amino)-1H-pyrrole-2-carbonyl]amino}-1H-pyrrole-2-carbonyl) amino]butanoyl}amino)-1-methyl-1H-imidazole-2-carbonyl]amino}-1-methyl-1H-pyrrole-2-carbonyl)amino]-1-methyl-1H-pyrrole-2-carbonyl}amino)-1-methyl-1H-pyrrole-2-carbonyl]amino}propyl)(methyl) amino]propyl}carbamoyl)benzoic acid · ligand · chains T, N, A
- ZN · Zinc ion · metal · 8 copies · chains A, B, C, I, J, L
- MG · Magnesium ion · metal · chains R, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7RIY · RNA polymerase II elongation complex with hairpin polyamide Py-Im 1, scaffold 2 soaked… · the same entry in another collection · chain R against R, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P04050
- Every structure of UniProt P08518
- Every structure of UniProt P16370
- Every structure of UniProt P20434
- Every structure of UniProt P20435
- Every structure of UniProt P20436
- Every structure of UniProt P27999
- Every structure of UniProt P22139
- Every structure of UniProt P38902
- Every structure of UniProt P40422
- Elsewhere: RCSB PDB 7RIY · PDBe 7RIY · UniProt P04050 · UniProt P08518 · UniProt P16370 · UniProt P20434 · UniProt P20435 · UniProt P20436 · UniProt P27999 · UniProt P22139 · UniProt P38902 · UniProt P40422
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