Research workbench

Crystal structure of outer membrane protein porb from neisseria meningitidis in complex with sucrose

Analyse Crystal structure of outer membrane protein porb from neisseria meningitidis in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3A2S
Type: protein
Length: 341 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Outer membrane protein II
Ligands: GLC, FRU
Pockets: 4 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 6% helix, 59% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	Outer membrane protein II	protein	341	6% helix, 59% strand	—

Ligands and binding sites

GLC · alpha-D-glucopyranose · sugar · chains X
FRU · beta-D-fructofuranose · sugar · chains X
LDA · Lauryl dimethylamine-N-oxide · additive · chains X

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	815	0.69	0.76	81	GLC, FRU, LDA
2	125	0.66	0.88	23	empty
3	190	0.47	0.75	31	empty
4	99	0.37	0.75	18	empty

Compared structures

3A2S · Crystal Structure of outer membrane protein PorB from Neisseria meningitidis in 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
Elsewhere: RCSB PDB 3A2S · PDBe 3A2S

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.