Research workbench

Human ASIC1A-NB.C1 complex

Analyse Human ASIC1A-NB.C1 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7RNN
Type: protein
Length: 540 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nanobodies NB.C1; Acid-sensing ion channel 1
UniProt: P78348
Ligands: NAG
Pockets: 5 · best druggability 0.65

Structure

electron microscopy · 2 distinct chains · 27% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	Nanobodies NB.C1	protein	116	5% helix, 42% strand	—
D	Acid-sensing ion channel 1	protein	424	33% helix, 24% strand	P78348

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains D

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

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	380	0.65	0.79	39	empty
2	196	0.57	0.80	36	empty
3	113	0.56	0.84	24	empty
4	172	0.49	0.77	32	empty
5	60	0.31	0.75	14	empty

Interfaces

1 interface between chains.

C–D · 640 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 7 disulfide, 2 glycan (disulfide, N-glycosylation).

Compared structures

7RNN · Human ASIC1a-Nb.C1 complex · the same entry in another collection · chain C against C, TM-score 1.00
P78348 · AlphaFold monomer V2.0 prediction for acid-sensing ion channel 1 (P78348) · a predicted model of the same protein · chain D against A, TM-score 0.97

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 P78348
Elsewhere: RCSB PDB 7RNN · PDBe 7RNN · UniProt P78348

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