Research workbench
Mycobacterium smegmatis lpqy-sugabc complex in the resting state
Analyse Mycobacterium smegmatis lpqy-sugabc complex in the resting state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CAE
- Type
- protein
- Length
- 1,763 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ABC transporter, ATP-binding protein sugc; ABC sugar transporter, permease component; ABC…
- UniProt
- A0R2C0, I7G6S2, A0R2C1, A0R2C3
- Pockets
- 16 · best druggability 0.87
Structure
electron microscopy · 4 distinct chains · 43% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, D | ABC transporter, ATP-binding protein sugc | protein | 384 | 29% helix, 20% strand | A0R2C0 |
| A | ABC sugar transporter, permease component | protein | 282 | 57% helix, 1% strand | I7G6S2 |
| B | ABC transporter, permease protein sugb | protein | 270 | 54% helix, 0% strand | A0R2C1 |
| E | Bacterial extracellular solute-binding protein | protein | 443 | 40% helix, 9% strand | A0R2C3 |
Pockets
16 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1020 | 0.87 | 0.88 | 111 | empty |
| 2 | 473 | 0.85 | 0.92 | 47 | empty |
| 3 | 1017 | 0.78 | 0.80 | 86 | empty |
| 4 | 221 | 0.57 | 0.79 | 31 | empty |
| 5 | 185 | 0.51 | 0.78 | 24 | empty |
Interfaces
6 interfaces between chains.
- A–B · 4053 Ų buried · 18 hydrogen bonds · protein-protein
- C–D · 1376 Ų buried · 5 hydrogen bonds · protein-protein
- A–E · 1056 Ų buried · 6 hydrogen bonds · protein-protein
- C–B · 838 Ų buried · 3 hydrogen bonds · protein-protein
- D–A · 784 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7CAE · Mycobacterium smegmatis LpqY-SugABC complex in the resting state · the same entry in another collection · chain C against C, 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 A0R2C0
- Every structure of UniProt I7G6S2
- Every structure of UniProt A0R2C1
- Every structure of UniProt A0R2C3
- Elsewhere: RCSB PDB 7CAE · PDBe 7CAE · UniProt A0R2C0 · UniProt I7G6S2 · UniProt A0R2C1 · UniProt A0R2C3
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