Research workbench
Crystal structure of the lambda N-nus factor complex
Analyse Crystal structure of the lambda N-nus factor complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LM7
- Type
- protein + RNA
- Length
- 1,529 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription TERMINATION/ANTITERMINATION protein nusa; N utilization substance protein B…
- UniProt
- P0AFF8, B7MD74, B7MCT6, P03045
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 10 distinct chains · 47% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription TERMINATION/ANTITERMINATION protein nusa | protein | 428 | 43% helix, 19% strand | P0AFF8 |
| B | N utilization substance protein B homolog | protein | 134 | 71% helix, 0% strand | B7MD74 |
| J | 30S ribosomal protein S10 | protein | 96 | 26% helix, 24% strand | B7MCT6 |
| N | Antitermination protein N | protein | 85 | 51% helix, 1% strand | P03045 |
| R | RNA (29-mer) | rna | 29 | — | — |
| C | Transcription TERMINATION/ANTITERMINATION protein nusa | protein | 423 | 43% helix, 21% strand | P0AFF8 |
| D | N utilization substance protein B homolog | protein | 132 | 73% helix, 0% strand | B7MD74 |
| E | 30S ribosomal protein S10 | protein | 91 | 29% helix, 25% strand | B7MCT6 |
| F | Antitermination protein N | protein | 84 | 44% helix, 2% strand | P03045 |
| G | RNA (29-mer) | rna | 27 | — | — |
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 443 | 0.85 | 0.92 | 78 | empty |
| 2 | 844 | 0.79 | 0.82 | 98 | empty |
| 3 | 767 | 0.76 | 0.81 | 78 | empty |
| 4 | 252 | 0.71 | 0.86 | 40 | empty |
| 5 | 640 | 0.71 | 0.79 | 55 | empty |
Interfaces
19 interfaces between chains.
- C–F · 1967 Ų buried · 23 hydrogen bonds · protein-protein
- A–N · 1941 Ų buried · 28 hydrogen bonds · protein-protein
- A–C · 1005 Ų buried · 20 hydrogen bonds · protein-protein
- B–R · 977 Ų buried · 23 hydrogen bonds · protein-nucleic
- D–E · 940 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 5LM7 · Crystal structure of the lambda N-Nus factor complex · the same entry in another collection · chain G against G, TM-score 1.00
- B7MD74 · AlphaFold monomer V2.0 prediction for transcription antitermination protein nusb (B7MD74) · a predicted model of the same protein · chain D against A, TM-score 0.93
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 B7MD74
- Every structure of UniProt B7MCT6
- Every structure of UniProt P03045
- Elsewhere: RCSB PDB 5LM7 · PDBe 5LM7 · UniProt P0AFF8 · UniProt B7MD74 · UniProt B7MCT6 · UniProt P03045
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