MolNFT v1 · #152980 · protein

Cryo-EM structure of mud crab tombus-like virus at 3.3 ångströms resolution

6IZL: “Cryo-EM structure of mud crab tombus-like virus at 3.3 ångströms resolution”. Electron microscopy, 4 pockets (best druggability 0.79). MolNFT v1 #152980 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6IZL
Type: protein
Length: 614 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mud crab tombus-like virus
UniProt: A0A1L3KFA2
Pockets: 4 · best druggability 0.79

Structure

electron microscopy · 3 distinct chains · 15% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Mud crab tombus-like virus	protein	193	13% helix, 39% strand	A0A1L3KFA2
B	Mud crab tombus-like virus	protein	201	18% helix, 39% strand	A0A1L3KFA2
C	Mud crab tombus-like virus	protein	220	15% helix, 34% strand	A0A1L3KFA2

Pockets

4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	128	0.79	0.97	22	empty
2	134	0.62	0.86	22	empty
3	120	0.62	0.87	20	empty
4	119	0.60	0.86	20	empty

Interfaces

3 interfaces between chains.

B–C · 1640 Å² buried · 13 hydrogen bonds · protein-protein
A–B · 1282 Å² buried · 15 hydrogen bonds · protein-protein
A–C · 1260 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

6IZL · Cryo-EM structure of Mud crab tombus-like virus at 3.3 Angstroms resolution · 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 A0A1L3KFA2
Elsewhere: RCSB PDB 6IZL · PDBe 6IZL · UniProt A0A1L3KFA2

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