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Bacteriophage SPP1 procapsid-I protein

Analyse Bacteriophage SPP1 procapsid-I protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6R3B
Type: protein
Length: 2,261 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein
UniProt: Q38582
Pockets: 20 · best druggability 0.76

Structure

electron microscopy · 1 distinct chain · 23% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Major capsid protein	protein	323	23% helix, 13% strand	Q38582

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	574	0.76	0.83	66	empty
2	115	0.75	0.95	32	empty
3	1024	0.74	0.77	98	empty
4	855	0.72	0.77	85	empty
5	65	0.71	0.96	22	empty

Interfaces

9 interfaces between chains.

D–E · 1432 Å² buried · 11 hydrogen bonds · protein-protein
E–F · 1405 Å² buried · 22 hydrogen bonds · protein-protein
A–B · 1399 Å² buried · 11 hydrogen bonds · protein-protein
B–C · 1335 Å² buried · 12 hydrogen bonds · protein-protein
A–F · 1207 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

6R3B · Bacteriophage SPP1 procapsid-I protein · the same entry in another collection · chain F against F, 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 Q38582
Elsewhere: RCSB PDB 6R3B · PDBe 6R3B · UniProt Q38582

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