MolNFT v1 · #176462 · protein

MDA5 cards-mavs card polyub complex

7DNI · Ubiquitin: “MDA5 cards-mavs card polyub complex”. Electron microscopy, 20 pockets (best druggability 0.89). MolNFT v1 #176462 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7DNI
Type: protein
Length: 1,761 residues
Chains: 16
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ubiquitin; Interferon-induced helicase C domain-containing protein 1; Mitochondrial…
EC: 3.6.4.13
UniProt: P0CG47, Q9BYX4, Q7Z434
Pockets: 20 · best druggability 0.89

Structure

electron microscopy · 8 distinct chains · 61% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H, F, J, K, L	Ubiquitin	protein	73	21% helix, 34% strand	P0CG47
A	Interferon-induced helicase C domain-containing protein 1 (EC 3.6.4.13)	protein	199	71% helix, 0% strand	Q9BYX4
B	Interferon-induced helicase C domain-containing protein 1 (EC 3.6.4.13)	protein	198	72% helix, 0% strand	Q9BYX4
C, D	Interferon-induced helicase C domain-containing protein 1 (EC 3.6.4.13)	protein	197	71% helix, 0% strand	Q9BYX4
E, I	Ubiquitin	protein	72	21% helix, 29% strand	P0CG47
G	Ubiquitin	protein	74	24% helix, 28% strand	P0CG47
M, N, P	Mitochondrial antiviral-signaling protein	protein	97	71% helix, 0% strand	Q7Z434
O	Mitochondrial antiviral-signaling protein	protein	96	75% helix, 0% strand	Q7Z434

Pockets

20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	969	0.89	0.91	126	empty
2	1008	0.88	0.90	97	empty
3	1058	0.77	0.79	68	empty
4	826	0.77	0.81	67	empty
5	568	0.74	0.82	53	empty

Interfaces

42 interfaces between chains.

D–G · 915 Å² buried · 9 hydrogen bonds · protein-protein
C–D · 908 Å² buried · 8 hydrogen bonds · protein-protein
A–D · 904 Å² buried · 12 hydrogen bonds · protein-protein
A–E · 871 Å² buried · 17 hydrogen bonds · protein-protein
A–B · 864 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

7DNI · MDA5 CARDs-MAVS CARD polyUb complex · the same entry in another collection · chain P against P, 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 P0CG47
Every structure of UniProt Q9BYX4
Every structure of UniProt Q7Z434
Elsewhere: RCSB PDB 7DNI · PDBe 7DNI · UniProt P0CG47 · UniProt Q9BYX4 · UniProt Q7Z434

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