MolNFT v1 · #156097 · protein

The crystal structure of diamondback moth ryanodine receptor SPRY1 domain

6LT9 · Ryanodine receptor 1: “The crystal structure of diamondback moth ryanodine receptor SPRY1 domain”. X-ray diffraction, 1 ligand (NA), 3 pockets (best druggability 0.36). MolNFT v1 #156097 on GenesisL1: 3D structure, binding sites and…

PDB: 6LT9
Type: protein
Length: 362 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ryanodine receptor 1
UniProt: G8EME3
Ligands: NA
Pockets: 3 · best druggability 0.36

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 40% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
F	Ryanodine receptor 1	protein	183	7% helix, 40% strand	G8EME3
B	Ryanodine receptor 1	protein	179	7% helix, 40% strand	G8EME3

Ligands and binding sites

NA · Sodium ion · metal · 2 copies · chains F, B
GOL · Glycerol · additive · 4 copies · chains F, B

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

Pockets

3 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	59	0.36	0.78	12	empty
2	67	0.34	0.76	13	empty
3	85	0.34	0.75	21	empty

Interfaces

1 interface between chains.

F–B · 1739 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

6LT9 · The crystal structure of diamondback moth ryanodine receptor SPRY1 domain · the same entry in another collection · chain F against F, 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 G8EME3
Elsewhere: RCSB PDB 6LT9 · PDBe 6LT9 · UniProt G8EME3

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