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Carboxysome subunit, CCMK1

Analyse Carboxysome subunit, CCMK1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3BN4
Type: protein
Length: 550 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Carbon dioxide-concentrating mechanism protein ccmk homolog 1
UniProt: P72760
Ligands: SO4
Pockets: 1 · best druggability 0.46

Structure

x-ray diffraction · 2 distinct chains · 39% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, E, F	Carbon dioxide-concentrating mechanism protein ccmk homolog 1	protein	92	40% helix, 36% strand	P72760
B, D	Carbon dioxide-concentrating mechanism protein ccmk homolog 1	protein	91	38% helix, 37% strand	P72760

Ligands and binding sites

SO4 · Sulfate ion · ion · 4 copies · chains A, F, B, C, D, E

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	209	0.46	0.74	24	SO4

Interfaces

6 interfaces between chains.

B–C · 1000 Å² buried · 15 hydrogen bonds · protein-protein
A–F · 997 Å² buried · 14 hydrogen bonds · protein-protein
D–E · 996 Å² buried · 14 hydrogen bonds · protein-protein
E–F · 994 Å² buried · 13 hydrogen bonds · protein-protein
C–D · 990 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

3BN4 · Carboxysome Subunit, CcmK1 · the same entry in another collection · chain F against F, TM-score 1.00
P72760 · AlphaFold monomer V2.0 prediction for carboxysome shell protein CCMK1 (P72760) · a predicted model of the same protein · chain D 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 P72760
Elsewhere: RCSB PDB 3BN4 · PDBe 3BN4 · UniProt P72760

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