MolNFT v1 · #150200 · protein + DNA + RNA
Structure of paused transcription complex pol II-dsif-nelf
6GML: “Structure of paused transcription complex pol II-dsif-nelf”. Electron microscopy, 2 ligands (ZN, MG). MolNFT v1 #150200 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6GML
- Type
- protein + DNA + RNA
- Length
- 5,774 residues
- Chains
- 21
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- I3LGP4, I3LCH3, I3LSI7, F1SKN8, I3LCB2, P60899, F1RKE4, I3LN51, Q9H3P2, Q8WX92, Q8IXH7, P18615, P63272, O00267, A0A287ADR4, I3LJZ9
- Ligands
- ZN, MG
Structure
electron microscopy · 21 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 1407 | — | — |
| B | — | protein | 1116 | — | I3LGP4 |
| C | — | protein | 258 | — | I3LCH3 |
| E | — | protein | 209 | — | I3LSI7 |
| F | — | protein | 82 | — | F1SKN8 |
| H | — | protein | 148 | — | I3LCB2 |
| I | — | protein | 117 | — | P60899 |
| J | — | protein | 67 | — | — |
| K | — | protein | 115 | — | F1RKE4 |
| L | — | protein | 46 | — | I3LN51 |
| N | — | dna | 36 | — | — |
| P | — | rna | 17 | — | — |
| T | — | dna | 45 | — | — |
| U | — | protein | 183 | — | Q9H3P2 |
| V | — | protein | 483 | — | Q8WX92 |
| W | — | protein | 538 | — | Q8IXH7 |
| X | — | protein | 22 | — | P18615 |
| Y | — | protein | 116 | — | P63272 |
| Z | — | protein | 470 | — | O00267 |
| D | — | protein | 128 | — | A0A287ADR4 |
| G | — | protein | 171 | — | I3LJZ9 |
Ligands and binding sites
- ZN · Zinc ion · metal · 9 copies · chains A, B, C, I, J, L, Y
- MG · Magnesium ion · metal · chains A, P
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- P63272 · AlphaFold monomer V2.0 prediction for transcription elongation factor SPT4 (P63272) · a predicted model of the same protein · chain Y against A, TM-score 0.98
- Q8IXH7 · AlphaFold monomer V2.0 prediction for negative elongation factor C/D (Q8IXH7) · a predicted model of the same protein · chain W against A, TM-score 0.92
- Q9H3P2 · AlphaFold monomer V2.0 prediction for negative elongation factor a (Q9H3P2) · a predicted model of the same protein · chain U against A, TM-score 0.92
- Q8WX92 · AlphaFold monomer V2.0 prediction for negative elongation factor B (Q8WX92) · a predicted model of the same protein · chain V against A, TM-score 0.86
- P60899 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase II subunit RPB9 (P60899) · a predicted model of the same protein · chain I against A, TM-score 0.86
- P18615 · AlphaFold monomer V2.0 prediction for negative elongation factor E (P18615) · a predicted model of the same protein · chain X against A, TM-score 0.62
- O00267 · AlphaFold monomer V2.0 prediction for transcription elongation factor SPT5 (O00267) · a predicted model of the same protein · chain Z against A, TM-score 0.54
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 I3LGP4
- Every structure of UniProt I3LCH3
- Every structure of UniProt I3LSI7
- Every structure of UniProt F1SKN8
- Every structure of UniProt I3LCB2
- Every structure of UniProt P60899
- Every structure of UniProt F1RKE4
- Every structure of UniProt I3LN51
- Every structure of UniProt Q9H3P2
- Every structure of UniProt Q8WX92
- Every structure of UniProt Q8IXH7
- Every structure of UniProt P18615
- Every structure of UniProt P63272
- Every structure of UniProt O00267
- Every structure of UniProt A0A287ADR4
- Every structure of UniProt I3LJZ9
- Elsewhere: RCSB PDB 6GML · PDBe 6GML · UniProt I3LGP4 · UniProt I3LCH3 · UniProt I3LSI7 · UniProt F1SKN8 · UniProt I3LCB2 · UniProt P60899 · UniProt F1RKE4 · UniProt I3LN51 · UniProt Q9H3P2 · UniProt Q8WX92 · UniProt Q8IXH7 · UniProt P18615 · UniProt P63272 · UniProt O00267 · UniProt A0A287ADR4 · UniProt I3LJZ9
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