Research workbench
Strand-transfer complex of tnsb from shcast
Analyse Strand-transfer complex of tnsb from shcast in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SVW
- Type
- protein + DNA
- Length
- 1,674 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- STC_LE_FOR; STC_LE_REV1; STC_LE_REV2; Tnsb
- Ligands
- MG
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 5 distinct chains · 35% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1, 4 | STC_LE_FOR | dna | 50 | — | — |
| 2, 5 | STC_LE_REV1 | dna | 30 | — | — |
| 3, 6 | STC_LE_REV2 | dna | 15 | — | — |
| A, C | Tnsb | protein | 296 | 31% helix, 28% strand | — |
| B, D | Tnsb | protein | 446 | 37% helix, 20% strand | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains 1, 6, B, 3, 4, D
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 | 1142 | 0.80 | 0.81 | 69 | empty |
| 2 | 1112 | 0.80 | 0.81 | 73 | empty |
| 3 | 688 | 0.76 | 0.82 | 53 | empty |
| 4 | 624 | 0.75 | 0.82 | 71 | empty |
| 5 | 881 | 0.73 | 0.78 | 75 | empty |
Interfaces
26 interfaces between chains.
- A–B · 1889 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1872 Ų buried · 18 hydrogen bonds · protein-protein
- 4–5 · 1289 Ų buried · 76 hydrogen bonds · nucleic-nucleic
- 1–2 · 1286 Ų buried · 77 hydrogen bonds · nucleic-nucleic
- 4–B · 1263 Ų buried · 30 hydrogen bonds · protein-nucleic
Compared structures
- 7SVW · Strand-transfer complex of TnsB from ShCAST · the same entry in another collection · chain 1 against 1, 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
- Elsewhere: RCSB PDB 7SVW · PDBe 7SVW
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