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CryoEM structure of Abo1 hexamer - ADP complex

Analyse CryoEM structure of Abo1 hexamer - ADP complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6JPQ
Type: protein
Length: 3,462 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 4.44
Source: Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Molecule: Uncharacterized AAA domain-containing protein C31G5.19
UniProt: O14114
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · resolution 4.44 · 1 distinct chain · 40% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Uncharacterized AAA domain-containing protein C31G5.19	protein	577	40% helix, 9% strand	O14114

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	1134	0.86	0.87	144	empty
2	956	0.86	0.87	121	empty
3	839	0.84	0.86	91	empty
4	1149	0.84	0.85	136	empty
5	1170	0.84	0.84	121	empty

Interfaces

6 interfaces between chains.

C–D · 4211 Å² buried · 22 hydrogen bonds · protein-protein
B–C · 4173 Å² buried · 26 hydrogen bonds · protein-protein
A–B · 4106 Å² buried · 21 hydrogen bonds · protein-protein
D–E · 4095 Å² buried · 20 hydrogen bonds · protein-protein
A–F · 4084 Å² buried · 25 hydrogen bonds · protein-protein

Compared structures

6JPQ · Cryoem structure of ABO1 hexamer - ADP complex · the same entry in another collection · chain F against F, TM-score 1.00
O14114 · AlphaFold monomer V2.0 prediction for uncharacterized aaa domain- containing protein… · a predicted model of the same protein · chain D against A, TM-score 0.95

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 O14114
Elsewhere: RCSB PDB 6JPQ · PDBe 6JPQ · UniProt O14114

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