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Crystal structure of pigeon cryptochrome 4 mutant Y319D in complex with flavin adenine dinucleotide

Analyse Crystal structure of pigeon cryptochrome 4 mutant Y319D in complex with flavin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PTZ
Type: protein
Length: 479 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cryptochrome-1
UniProt: A0A2I0LZR8
Ligands: FAD, MG
Pockets: 4 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 54% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cryptochrome-1	protein	479	54% helix, 7% strand	A0A2I0LZR8

Ligands and binding sites

FAD · Flavin-adenine dinucleotide · ligand · chains A
MG · Magnesium ion · metal · chains A
PEG · Di(hydroxyethyl)ether · additive · 7 copies · chains A
GOL · Glycerol · additive · chains A

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	408	0.78	0.87	41	FAD, MG
2	249	0.78	0.91	42	PEG
3	91	0.32	0.73	18	empty
4	67	0.29	0.73	12	PEG

Compared structures

6PTZ · Crystal structure of pigeon Cryptochrome 4 mutant Y319D in complex with flavin adenine… · 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 A0A2I0LZR8
Elsewhere: RCSB PDB 6PTZ · PDBe 6PTZ · UniProt A0A2I0LZR8

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