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Cryo-EM structure of human CALHM2

Analyse Cryo-EM structure of human CALHM2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6VAK
Type: protein
Length: 2,992 residues
Chains: 11
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Calcium homeostasis modulator protein 2
UniProt: Q9HA72
Pockets: 20 · best druggability 0.75

Structure

electron microscopy · 1 distinct chain · 68% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K	Calcium homeostasis modulator protein 2	protein	272	68% helix, 1% strand	Q9HA72

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	971	0.75	0.78	89	empty
2	979	0.75	0.77	90	empty
3	1035	0.75	0.77	102	empty
4	498	0.67	0.78	42	empty
5	524	0.66	0.77	48	empty

Interfaces

22 interfaces between chains.

F–G · 2792 Å² buried · 18 hydrogen bonds · protein-protein
I–J · 2788 Å² buried · 16 hydrogen bonds · protein-protein
A–B · 2756 Å² buried · 15 hydrogen bonds · protein-protein
E–F · 2752 Å² buried · 14 hydrogen bonds · protein-protein
J–K · 2749 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 22 disulfide (disulfide).

Compared structures

6VAK · Cryo-EM structure of human CALHM2 · the same entry in another collection · chain K against K, TM-score 1.00
Q9HA72 · AlphaFold monomer V2.0 prediction for calcium homeostasis modulator protein 2 (Q9HA72) · a predicted model of the same protein · chain D against A, TM-score 0.93

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 Q9HA72
Elsewhere: RCSB PDB 6VAK · PDBe 6VAK · UniProt Q9HA72

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