MolNFT v1 · #150279 · protein + DNA + RNA
Structure of the RNA polymerase lambda-based antitermination complex
6GOV · Transcription TERMINATION/ANTITERMINATION protein nusa: “Structure of the RNA polymerase lambda-based antitermination complex”. Electron microscopy, 2 ligands (ZN, MG), 20 pockets (best druggability 0.86). MolNFT v1 #150279 on…
- PDB
- 6GOV
- Type
- protein + DNA + RNA
- Length
- 4,274 residues
- Chains
- 13
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription TERMINATION/ANTITERMINATION protein nusa; Transcription antitermination…
- EC
- 2.7.7.6
- UniProt
- P0AFF8, P0A782, P0A7R7, P0AFG1, P03045, P0A7Z6, P0A802, P0A8V4, P0A8T8
- Ligands
- ZN, MG
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 13 distinct chains · 33% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription TERMINATION/ANTITERMINATION protein nusa | protein | 420 | 41% helix, 18% strand | P0AFF8 |
| B | Transcription antitermination protein nusb | protein | 139 | 71% helix, 0% strand | P0A782 |
| E | 30S ribosomal protein S10 | protein | 96 | 23% helix, 17% strand | P0A7R7 |
| G | Transcription TERMINATION/ANTITERMINATION protein nusg | protein | 172 | 20% helix, 31% strand | P0AFG1 |
| N | Antitermination protein N | protein | 110 | 44% helix, 0% strand | P03045 |
| U | DNA-directed RNA polymerase subunit alpha (EC 2.7.7.6) | protein | 230 | 23% helix, 35% strand | P0A7Z6 |
| V | DNA-directed RNA polymerase subunit alpha (EC 2.7.7.6) | protein | 220 | 21% helix, 37% strand | P0A7Z6 |
| W | DNA-directed RNA polymerase subunit omega (EC 2.7.7.6) | protein | 90 | 61% helix, 0% strand | P0A802 |
| X | DNA-directed RNA polymerase subunit beta (EC 2.7.7.6) | protein | 1341 | 29% helix, 22% strand | P0A8V4 |
| Y | DNA-directed RNA polymerase subunit beta' (EC 2.7.7.6) | protein | 1339 | 35% helix, 16% strand | P0A8T8 |
| K | DNA (I) | dna | 32 | — | — |
| L | DNA (II) | dna | 37 | — | — |
| R | RNA (transcription bubble) | rna | 48 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1054 | 0.86 | 0.88 | 130 | empty |
| 2 | 1026 | 0.84 | 0.85 | 105 | empty |
| 3 | 680 | 0.83 | 0.88 | 78 | empty |
| 4 | 741 | 0.80 | 0.84 | 75 | empty |
| 5 | 562 | 0.78 | 0.84 | 52 | empty |
Interfaces
36 interfaces between chains.
- X–Y · 8192 Ų buried · 80 hydrogen bonds · protein-protein
- U–V · 2161 Ų buried · 10 hydrogen bonds · protein-protein
- A–N · 2045 Ų buried · 25 hydrogen bonds · protein-protein
- N–X · 1854 Ų buried · 16 hydrogen bonds · protein-protein
- U–X · 1795 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 6GOV · Structure of THE RNA POLYMERASE LAMBDA-BASED ANTITERMINATION COMPLEX · 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 P0AFF8
- Every structure of UniProt P0A782
- Every structure of UniProt P0A7R7
- Every structure of UniProt P0AFG1
- Every structure of UniProt P03045
- Every structure of UniProt P0A7Z6
- Every structure of UniProt P0A802
- Every structure of UniProt P0A8V4
- Every structure of UniProt P0A8T8
- Elsewhere: RCSB PDB 6GOV · PDBe 6GOV · UniProt P0AFF8 · UniProt P0A782 · UniProt P0A7R7 · UniProt P0AFG1 · UniProt P03045 · UniProt P0A7Z6 · UniProt P0A802 · UniProt P0A8V4 · UniProt P0A8T8
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.