MolNFT v1 · #159337 · protein

Structure of mouse CD1D- glc-dag (sn-1 C18:0, sn-2 C18:1C9)-inkt TCR ternary complex

6OMG: “Structure of mouse CD1D- glc-dag (sn-1 C18:0, sn-2 C18:1C9)-inkt TCR ternary complex”. X-ray diffraction, 4 ligands (MVV, NAG, FUC). MolNFT v1 #159337 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6OMG
Type: protein
Length: 811 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: A0A0R4J090, P01887
Ligands: MVV, NAG, FUC, NA

Structure

x-ray diffraction · 4 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	—	protein	201	—	—
D	—	protein	239	—	—
A	—	protein	274	—	A0A0R4J090
B	—	protein	97	—	P01887

Ligands and binding sites

MVV · (2R)-1-(alpha-D-glucopyranosyloxy)-3-(octadecanoyloxy) propan-2-yl (9Z)-octadec-9-enoate · ligand · chains C, A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A
FUC · alpha-L-fucopyranose · sugar · chains A
NA · Sodium ion · metal · 5 copies · chains C, D, A
GOL · Glycerol · additive · 4 copies · chains C, D, A, B

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

Compared structures

6OMG · Structure of mouse CD1D- Glc-DAG (sn-1 C18:0, sn-2 C18:1c9)-iNKT TCR Ternary complex · the same entry in another collection · chain C against C, TM-score 1.00
P01887 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P01887) · a predicted model of the same protein · chain B against A, TM-score 0.98

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 A0A0R4J090
Every structure of UniProt P01887
Elsewhere: RCSB PDB 6OMG · PDBe 6OMG · UniProt A0A0R4J090 · UniProt P01887

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