Research workbench
Cryo-EM structure of mycobacterium smegmatis lhr helicase C-terminal domain
Analyse Cryo-EM structure of mycobacterium smegmatis lhr helicase C-terminal domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7LHL
- Type
- protein
- Length
- 2,285 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent DNA helicase
- EC
- 3.6.4.13
- UniProt
- A0A0D6HFY2
- Pockets
- 20 · best druggability 0.70
Structure
electron microscopy · 4 distinct chains · 39% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP-dependent DNA helicase (EC 3.6.4.13) | protein | 572 | 38% helix, 8% strand | A0A0D6HFY2 |
| B | ATP-dependent DNA helicase (EC 3.6.4.13) | protein | 569 | 39% helix, 8% strand | A0A0D6HFY2 |
| C | ATP-dependent DNA helicase (EC 3.6.4.13) | protein | 568 | 38% helix, 6% strand | A0A0D6HFY2 |
| D | ATP-dependent DNA helicase (EC 3.6.4.13) | protein | 576 | 40% helix, 8% strand | A0A0D6HFY2 |
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 | 222 | 0.70 | 0.86 | 45 | empty |
| 2 | 197 | 0.63 | 0.83 | 38 | empty |
| 3 | 486 | 0.61 | 0.75 | 57 | empty |
| 4 | 283 | 0.60 | 0.79 | 44 | empty |
| 5 | 332 | 0.59 | 0.77 | 53 | empty |
Interfaces
6 interfaces between chains.
- A–C · 842 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 726 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 664 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 611 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 383 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7LHL · cryo-EM structure of Mycobacterium smegmatis Lhr helicase C-terminal domain · 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 A0A0D6HFY2
- Elsewhere: RCSB PDB 7LHL · PDBe 7LHL · UniProt A0A0D6HFY2
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