Research workbench
X-ray structure of full-length come from streptococcus pneumoniae.
Analyse X-ray structure of full-length come from streptococcus pneumoniae. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CBV
- Type
- protein
- Length
- 1,505 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Come
- UniProt
- Q79CK7
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 5 distinct chains · 35% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Come | protein | 251 | 38% helix, 28% strand | Q79CK7 |
| C | Come | protein | 249 | 36% helix, 29% strand | Q79CK7 |
| D | Come | protein | 250 | 33% helix, 30% strand | Q79CK7 |
| E | Come | protein | 248 | 36% helix, 29% strand | Q79CK7 |
| F | Come | protein | 256 | 35% helix, 28% strand | Q79CK7 |
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 922 | 0.81 | 0.83 | 70 | empty |
| 2 | 482 | 0.78 | 0.86 | 68 | empty |
| 3 | 282 | 0.75 | 0.88 | 48 | empty |
| 4 | 406 | 0.74 | 0.84 | 59 | empty |
| 5 | 68 | 0.72 | 0.97 | 21 | empty |
Interfaces
9 interfaces between chains.
- E–F · 1935 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1859 Ų buried · 24 hydrogen bonds · protein-protein
- C–D · 1844 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 260 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 200 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 23 modified (engineered).
Compared structures
- 4CBV · X-ray structure of full-length ComE from Streptococcus pneumoniae. · 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 Q79CK7
- Elsewhere: RCSB PDB 4CBV · PDBe 4CBV · UniProt Q79CK7
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