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Crystal structure of E. COLI ybbn

Analyse Crystal structure of E. COLI ybbn in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3QOU
Type: protein
Length: 282 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein ybbn
UniProt: P77395
Ligands: CA
Pockets: 2 · best druggability 0.38

Structure

x-ray diffraction · 1 distinct chain · 60% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein ybbn	protein	282	60% helix, 10% strand	P77395

Ligands and binding sites

CA · Calcium ion · metal · chains A

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	87	0.38	0.77	15	empty
2	52	0.30	0.76	11	empty

Modifications

Observed in the structure: 8 modified (methylation).

Compared structures

3QOU · Crystal Structure of E. coli YbbN · the same entry in another collection · chain A against A, TM-score 1.00
P77395 · AlphaFold monomer V2.0 prediction for chaperedoxin (P77395) · a predicted model of the same protein · chain A against A, TM-score 0.94

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 P77395
Elsewhere: RCSB PDB 3QOU · PDBe 3QOU · UniProt P77395

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