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Crystal structure of GLUN1B-2B atd complexed to FAB5 anti-GLUN2B antibody

Analyse Crystal structure of GLUN1B-2B atd complexed to FAB5 anti-GLUN2B antibody in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7TE6
Type: protein
Length: 2,206 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glutamate receptor ionotropic, NMDA 1; Glutamate receptor ionotropic, NMDA 2B; FAB5 heavy…
UniProt: A0A1L8F5J9, Q00960
Pockets: 20 · best druggability 0.83

Structure

x-ray diffraction · 7 distinct chains · 25% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glutamate receptor ionotropic, NMDA 1	protein	346	36% helix, 23% strand	A0A1L8F5J9
B	Glutamate receptor ionotropic, NMDA 2B	protein	329	33% helix, 23% strand	Q00960
C	FAB5 heavy chain	protein	215	4% helix, 49% strand	—
D, H	FAB5 light chain	protein	215	3% helix, 51% strand	—
E	Glutamate receptor ionotropic, NMDA 1	protein	345	37% helix, 24% strand	A0A1L8F5J9
F	Glutamate receptor ionotropic, NMDA 2B	protein	327	34% helix, 23% strand	Q00960
G	FAB5 heavy chain	protein	214	4% helix, 51% strand	—

Pockets

20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	954	0.83	0.84	122	empty
2	469	0.75	0.83	48	empty
3	1049	0.74	0.77	90	empty
4	64	0.72	0.98	23	empty
5	417	0.70	0.81	44	empty

Interfaces

18 interfaces between chains.

C–D · 1957 Å² buried · 13 hydrogen bonds · protein-protein
G–H · 1955 Å² buried · 17 hydrogen bonds · protein-protein
E–F · 1441 Å² buried · 10 hydrogen bonds · protein-protein
A–B · 1306 Å² buried · 6 hydrogen bonds · protein-protein
D–H · 1103 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

7TE6 · Crystal structure of GluN1b-2B ATD complexed to Fab5 anti-GluN2B antibody · 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 A0A1L8F5J9
Every structure of UniProt Q00960
Elsewhere: RCSB PDB 7TE6 · PDBe 7TE6 · UniProt A0A1L8F5J9 · UniProt Q00960

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