Research workbench
Crystal structure of the sheath tail protein LIN1278 from listeria innocua, northeast structural genomics consortium target LKR115
Analyse Crystal structure of the sheath tail protein LIN1278 from listeria innocua… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LML
- Type
- protein
- Length
- 2,613 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- LIN1278 protein
- UniProt
- Q92CB1
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 6 distinct chains · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | LIN1278 protein | protein | 440 | 31% helix, 28% strand | Q92CB1 |
| B | LIN1278 protein | protein | 435 | 31% helix, 28% strand | Q92CB1 |
| C | LIN1278 protein | protein | 438 | 31% helix, 29% strand | Q92CB1 |
| D | LIN1278 protein | protein | 434 | 30% helix, 27% strand | Q92CB1 |
| E | LIN1278 protein | protein | 431 | 30% helix, 29% strand | Q92CB1 |
| F | LIN1278 protein | protein | 435 | 31% helix, 28% strand | Q92CB1 |
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 886 | 0.78 | 0.81 | 86 | empty |
| 2 | 939 | 0.78 | 0.80 | 97 | empty |
| 3 | 942 | 0.77 | 0.80 | 90 | empty |
| 4 | 732 | 0.73 | 0.79 | 75 | empty |
| 5 | 1128 | 0.72 | 0.76 | 105 | empty |
Interfaces
9 interfaces between chains.
- A–B · 761 Ų buried · 0 hydrogen bonds · protein-protein
- E–F · 742 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 623 Ų buried · 5 hydrogen bonds · protein-protein
- D–F · 559 Ų buried · 3 hydrogen bonds · protein-protein
- C–F · 187 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 modified (engineered).
Compared structures
- 3LML · Crystal Structure of the sheath tail protein Lin1278 from Listeria innocua, Northeast… · 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 Q92CB1
- Elsewhere: RCSB PDB 3LML · PDBe 3LML · UniProt Q92CB1
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