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Cryoem structure of football-shaped GROEL:ES2 with rubisco

Analyse Cryoem structure of football-shaped GROEL:ES2 with rubisco in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7VWX
Type: protein
Length: 9,146 residues
Chains: 29
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Co-chaperonin groes; Chaperonin groel; Ribulose bisphosphate carboxylase
EC: 5.6.1.7, 4.1.1.39
UniProt: P0A6F9, P0A6F5, Q2RRP5
Pockets: 20 · best druggability 0.90

Structure

electron microscopy · 7 distinct chains · 24% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
1, 2, P, R, T, U, V, W, X	Co-chaperonin groes	protein	97	0% helix, 33% strand	P0A6F9
A, B, C, D, E, F, G, H, I, J, K, L, M, N	Chaperonin groel (EC 5.6.1.7)	protein	524	51% helix, 16% strand	P0A6F5
O	Co-chaperonin groes	protein	95	0% helix, 40% strand	P0A6F9
Q, S	Co-chaperonin groes	protein	96	0% helix, 35% strand	P0A6F9
Y	Co-chaperonin groes	protein	96	3% helix, 31% strand	P0A6F9
Z	Co-chaperonin groes	protein	95	0% helix, 37% strand	P0A6F9
a	Ribulose bisphosphate carboxylase (EC 4.1.1.39)	protein	459	18% helix, 0% strand	Q2RRP5

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	1068	0.90	0.92	160	empty
2	1020	0.90	0.92	141	empty
3	1051	0.89	0.91	144	empty
4	1158	0.89	0.90	162	empty
5	1111	0.89	0.90	145	empty

Interfaces

73 interfaces between chains.

E–F · 1724 Å² buried · 26 hydrogen bonds · protein-protein
C–D · 1606 Å² buried · 9 hydrogen bonds · protein-protein
H–I · 1567 Å² buried · 22 hydrogen bonds · protein-protein
L–M · 1562 Å² buried · 15 hydrogen bonds · protein-protein
F–G · 1483 Å² buried · 16 hydrogen bonds · protein-protein

Compared structures

7VWX · CryoEM structure of football-shaped GroEL:ES2 with RuBisCO · the same entry in another collection · chain H against H, 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 P0A6F9
Every structure of UniProt P0A6F5
Every structure of UniProt Q2RRP5
Elsewhere: RCSB PDB 7VWX · PDBe 7VWX · UniProt P0A6F9 · UniProt P0A6F5 · UniProt Q2RRP5

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