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Structure of respiratory syncytial virus nucleocapsid protein, P212121 crystal form

Analyse Structure of respiratory syncytial virus nucleocapsid protein, P212121 crystal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2YHM
Type: protein + RNA
Length: 3,820 residues
Chains: 11
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleoprotein; RNA
UniProt: P03418
Pockets: 20 · best druggability 0.82

Structure

x-ray diffraction · 2 distinct chains · 60% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J	Nucleoprotein	protein	375	60% helix, 7% strand	P03418
K	RNA	rna	70	—	—

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	1147	0.82	0.83	86	empty
2	1122	0.82	0.84	87	empty
3	1012	0.82	0.83	75	empty
4	1103	0.82	0.83	91	empty
5	1167	0.82	0.83	88	empty

Interfaces

31 interfaces between chains.

D–E · 2697 Å² buried · 37 hydrogen bonds · protein-protein
E–F · 2692 Å² buried · 28 hydrogen bonds · protein-protein
B–C · 2690 Å² buried · 33 hydrogen bonds · protein-protein
F–G · 2690 Å² buried · 31 hydrogen bonds · protein-protein
G–H · 2677 Å² buried · 37 hydrogen bonds · protein-protein

Compared structures

2YHM · Structure of respiratory syncytial virus nucleocapsid protein, P212121 crystal form · 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 P03418
Elsewhere: RCSB PDB 2YHM · PDBe 2YHM · UniProt P03418

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