Research workbench
Structure of DOTL(656-783)-icms-icmw-lvga derived from legionella pneumophila
Analyse Structure of DOTL(656-783)-icms-icmw-lvga derived from legionella pneumophila in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5X90
- Type
- protein
- Length
- 1,068 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Icms; Icmw; Icmo (dotl); Hypothetical virulence protein
- UniProt
- Q5ZYD0, Q5ZS31, Q5ZYC6, Q5ZY48
- Pockets
- 20 · best druggability 0.71
Structure
x-ray diffraction · 7 distinct chains · 52% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, A | Icms | protein | 113 | 48% helix, 14% strand | Q5ZYD0 |
| F | Icmw | protein | 149 | 69% helix, 0% strand | Q5ZS31 |
| G | Icmo (dotl) | protein | 108 | 57% helix, 2% strand | Q5ZYC6 |
| H | Hypothetical virulence protein | protein | 167 | 36% helix, 17% strand | Q5ZY48 |
| B | Icmw | protein | 146 | 69% helix, 0% strand | Q5ZS31 |
| C | Icmo (dotl) | protein | 101 | 53% helix, 2% strand | Q5ZYC6 |
| D | Hypothetical virulence protein | protein | 171 | 39% helix, 20% strand | Q5ZY48 |
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.71 | 0.98 | 15 | empty |
| 2 | 66 | 0.71 | 0.96 | 19 | empty |
| 3 | 58 | 0.68 | 0.95 | 17 | empty |
| 4 | 352 | 0.65 | 0.80 | 44 | empty |
| 5 | 266 | 0.63 | 0.81 | 36 | empty |
Interfaces
14 interfaces between chains.
- F–G · 2700 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 2271 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 1494 Ų buried · 18 hydrogen bonds · protein-protein
- E–H · 1459 Ų buried · 19 hydrogen bonds · protein-protein
- F–H · 1183 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 5X90 · Structure of DotL(656-783)-IcmS-IcmW-LvgA derived from Legionella pneumophila · the same entry in another collection · chain B against B, 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 Q5ZYD0
- Every structure of UniProt Q5ZS31
- Every structure of UniProt Q5ZYC6
- Every structure of UniProt Q5ZY48
- Elsewhere: RCSB PDB 5X90 · PDBe 5X90 · UniProt Q5ZYD0 · UniProt Q5ZS31 · UniProt Q5ZYC6 · UniProt Q5ZY48
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