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Cryoem structure of SMCT1

Analyse Cryoem structure of SMCT1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7SL9
Type: protein
Length: 619 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sodium-coupled monocarboxylate transporter 1; Nanobody NB2
UniProt: Q8N695
Ligands: BUA
Pockets: 5 · best druggability 0.78

Structure

electron microscopy · 2 distinct chains · 55% helix, 6% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sodium-coupled monocarboxylate transporter 1	protein	497	68% helix, 0% strand	Q8N695
B	Nanobody NB2	protein	122	2% helix, 33% strand	—

Ligands and binding sites

BUA · butanoic acid · ligand · chains A

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

Pockets

5 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	443	0.78	0.86	72	BUA
2	266	0.55	0.77	25	empty
3	67	0.35	0.76	14	empty
4	65	0.35	0.75	13	empty
5	64	0.34	0.76	16	empty

Interfaces

1 interface between chains.

A–B · 924 Å² buried · 9 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

7SL9 · CryoEM structure of SMCT1 · the same entry in another collection · chain A against A, TM-score 1.00
Q8N695 · AlphaFold monomer V2.0 prediction for sodium-coupled monocarboxylate transporter 1… · a predicted model of the same protein · chain A against A, TM-score 0.95

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q8N695
Elsewhere: RCSB PDB 7SL9 · PDBe 7SL9 · UniProt Q8N695

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