Research workbench

Sfsting with C-di-gmp double fiber

Analyse Sfsting with C-di-gmp double fiber in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7UN9
Type: protein
Length: 2,244 residues
Chains: 12
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CD-ntase-associated protein 12
EC: 3.2.2.5
UniProt: A0A2T5Y4G4
Ligands: C2E
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 5 distinct chains · 42% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, E	CD-ntase-associated protein 12 (EC 3.2.2.5)	protein	171	38% helix, 23% strand	A0A2T5Y4G4
B, D, J, F, L	CD-ntase-associated protein 12 (EC 3.2.2.5)	protein	177	38% helix, 26% strand	A0A2T5Y4G4
G	CD-ntase-associated protein 12 (EC 3.2.2.5)	protein	241	46% helix, 20% strand	A0A2T5Y4G4
H	CD-ntase-associated protein 12 (EC 3.2.2.5)	protein	261	42% helix, 19% strand	A0A2T5Y4G4
I, K	CD-ntase-associated protein 12 (EC 3.2.2.5)	protein	172	42% helix, 26% strand	A0A2T5Y4G4

Ligands and binding sites

C2E · 9,9'-[(2r,3r,3as,5s,7ar,9r,10r,10as,12s,14ar)-3,5,10, 12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3, 2-D:3',2'-J][1,3,7,9,2, 8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) · ligand · 6 copies · chains A, B, G, H, C, D, I, J, E, F, K, L

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

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	541	0.86	0.91	57	empty
2	508	0.85	0.92	66	C2E
3	442	0.85	0.93	57	C2E
4	493	0.85	0.92	58	C2E
5	532	0.84	0.90	53	empty

Interfaces

24 interfaces between chains.

G–H · 1765 Å² buried · 7 hydrogen bonds · protein-protein
C–D · 1315 Å² buried · 5 hydrogen bonds · protein-protein
I–J · 1299 Å² buried · 6 hydrogen bonds · protein-protein
A–B · 1297 Å² buried · 5 hydrogen bonds · protein-protein
E–F · 1278 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

7UN9 · SfSTING with c-di-GMP double fiber · the same entry in another collection · chain A 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 A0A2T5Y4G4
Elsewhere: RCSB PDB 7UN9 · PDBe 7UN9 · UniProt A0A2T5Y4G4

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.