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Xfel structure of the off state of a reversibly photoswitching fluorescent protein determined using the gdvn injection method

Analyse Xfel structure of the off state of a reversibly photoswitching fluorescent… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5OQA
Type: protein
Length: 215 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Green to red photoconvertible GFP-like protein eosfp
UniProt: Q5S6Z9
Ligands: VYA
Pockets: 1 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 7% helix, 58% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Green to red photoconvertible GFP-like protein eosfp	protein	215	7% helix, 58% strand	Q5S6Z9

Ligands and binding sites

VYA · 2-[(4~{Z})-2-[(1~{S})-1-azanyl-3-methyl-butyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic acid · ligand · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	96	0.77	0.98	22	VYA

Modifications

Observed in the structure: 2 covalent (covalent ligand).

Compared structures

5OQA · XFEL structure of the off state of a reversibly photoswitching fluorescent protein… · 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 Q5S6Z9
Elsewhere: RCSB PDB 5OQA · PDBe 5OQA · UniProt Q5S6Z9

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