MolNFT v1 · #144190 · protein + DNA + RNA
Pol II elongation complex with an abasic lesion at I-1 position, soaking umpnpp
6BM4: “Pol II elongation complex with an abasic lesion at I-1 position, soaking umpnpp”. X-ray diffraction, 3 ligands (2KH, ZN, MG). MolNFT v1 #144190 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6BM4
- Type
- protein + DNA + RNA
- Length
- 3,521 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P04050, P08518, P16370, P20434, P20435, P20436, P27999, P22139, P38902, P40422
- Ligands
- 2KH, ZN, MG
Structure
x-ray diffraction · 12 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 1372 | — | P04050 |
| B | — | protein | 1097 | — | P08518 |
| C | — | protein | 266 | — | P16370 |
| E | — | protein | 213 | — | P20434 |
| F | — | protein | 84 | — | P20435 |
| H | — | protein | 130 | — | P20436 |
| I | — | protein | 115 | — | P27999 |
| J | — | protein | 65 | — | P22139 |
| K | — | protein | 114 | — | P38902 |
| L | — | protein | 44 | — | P40422 |
| T | — | dna | 12 | — | — |
| R | — | rna | 9 | — | — |
Ligands and binding sites
- 2KH · 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine · ligand · chains A, B
- ZN · Zinc ion · metal · 8 copies · chains A, B, C, I, J, L
- MG · Magnesium ion · metal · 2 copies · chains A, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6BM4 · Pol II elongation complex with an abasic lesion at i-1 position,soaking UMPNPP · the same entry in another collection · chain A against A, 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 6BM4 · PDBe 6BM4 · UniProt P04050 · UniProt P08518 · UniProt P16370 · UniProt P20434 · UniProt P20435 · UniProt P20436 · UniProt P27999 · UniProt P22139 · UniProt P38902 · UniProt P40422
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.