Research workbench
Carboxysome shell protein, CCMK2 C-terminal deletion mutant
Analyse Carboxysome shell protein, CCMK2 C-terminal deletion mutant in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CIM
- Type
- protein
- Length
- 282 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Carbon dioxide-concentrating mechanism protein ccmk homolog 2
- UniProt
- P72761
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.35
Structure
x-ray diffraction · 3 distinct chains · 38% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Carbon dioxide-concentrating mechanism protein ccmk homolog 2 | protein | 94 | 37% helix, 36% strand | P72761 |
| B | Carbon dioxide-concentrating mechanism protein ccmk homolog 2 | protein | 93 | 39% helix, 37% strand | P72761 |
| C | Carbon dioxide-concentrating mechanism protein ccmk homolog 2 | protein | 95 | 38% helix, 39% strand | P72761 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B, C
- GOL · Glycerol · additive · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 82 | 0.35 | 0.76 | 18 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1033 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 222 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 70 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3CIM · Carboxysome shell protein, CcmK2 C-terminal deletion mutant · the same entry in another collection · chain A against A, TM-score 1.00
- P72761 · AlphaFold monomer V2.0 prediction for carboxysome shell protein CCMK2 (P72761) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P72761
- Elsewhere: RCSB PDB 3CIM · PDBe 3CIM · UniProt P72761
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