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B. subtilis gpsb C-terminal domain

Analyse B. subtilis gpsb C-terminal domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5AN5
Type: protein
Length: 198 residues
Chains: 9
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cell cycle protein gpsb
UniProt: P0CI74
Pockets: 2 · best druggability 0.51

Structure

x-ray diffraction · 8 distinct chains · 78% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Cell cycle protein gpsb	protein	21	90% helix, 0% strand	P0CI74
C	Cell cycle protein gpsb	protein	22	86% helix, 0% strand	P0CI74
D	Cell cycle protein gpsb	protein	26	77% helix, 0% strand	P0CI74
E, H	Cell cycle protein gpsb	protein	23	70% helix, 0% strand	P0CI74
F	Cell cycle protein gpsb	protein	19	74% helix, 0% strand	P0CI74
G	Cell cycle protein gpsb	protein	17	88% helix, 0% strand	P0CI74
I	Cell cycle protein gpsb	protein	23	83% helix, 0% strand	P0CI74
J	Cell cycle protein gpsb	protein	24	58% helix, 0% strand	P0CI74

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains G, D, J

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	103	0.51	0.82	21	empty
2	82	0.35	0.75	16	empty

Interfaces

16 interfaces between chains.

D–J · 442 Å² buried · 2 hydrogen bonds · protein-protein
C–J · 436 Å² buried · 3 hydrogen bonds · protein-protein
F–G · 430 Å² buried · 5 hydrogen bonds · protein-protein
C–D · 429 Å² buried · 3 hydrogen bonds · protein-protein
B–I · 421 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

5AN5 · B. subtilis GpsB C-terminal Domain · the same entry in another collection · chain J against J, TM-score 1.00
P0CI74 · AlphaFold monomer V2.0 prediction for cell cycle protein gpsb (P0CI74) · a predicted model of the same protein · chain G against A, TM-score 0.77

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 P0CI74
Elsewhere: RCSB PDB 5AN5 · PDBe 5AN5 · UniProt P0CI74

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