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Crystal structure of rotavirus SA11 VP1/RNA (aaaagcc) complex

Analyse Crystal structure of rotavirus SA11 VP1/RNA (aaaagcc) complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2R7U
Type: protein + RNA
Length: 1,078 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'-R(*AP*A*AP*AP*GP*CP*C)-3'); RNA-dependent RNA polymerase
UniProt: O37061
Pockets: 18 · best druggability 0.78

Structure

x-ray diffraction · 2 distinct chains · 52% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	RNA (5'-R(APAAPAPGPCP*C)-3')	rna	5	—	—
A	RNA-dependent RNA polymerase	protein	1073	52% helix, 13% strand	O37061

Pockets

18 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	239	0.78	0.91	33	empty
2	197	0.71	0.88	29	empty
3	323	0.70	0.84	39	empty
4	247	0.66	0.83	30	empty
5	142	0.65	0.87	27	empty

Interfaces

1 interface between chains.

X–A · 638 Å² buried · 10 hydrogen bonds · protein-nucleic

Compared structures

2R7U · Crystal Structure of Rotavirus SA11 VP1/RNA (AAAAGCC) Complex · the same entry in another collection · chain X against X, 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 O37061
Elsewhere: RCSB PDB 2R7U · PDBe 2R7U · UniProt O37061

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