Research workbench

Cryoem structure of somatostatin receptor 4 (SSTR4) with GI1 and J- 2156

Analyse Cryoem structure of somatostatin receptor 4 (SSTR4) with GI1 and J- 2156 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7XMT
Type: protein
Length: 1,068 residues
Chains: 5
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Somatostatin receptor type 4; Guanine nucleotide-binding protein G(I) subunit alpha-1…
UniProt: P31391, P63096, P59768, P62873
Ligands: I8B
Pockets: 13 · best druggability 0.80

Structure

electron microscopy · 5 distinct chains · 29% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
R	Somatostatin receptor type 4	protein	265	78% helix, 1% strand	P31391
A	Guanine nucleotide-binding protein G(I) subunit alpha-1	protein	224	37% helix, 18% strand	P63096
S	Single chain variable fragment of antibody	protein	233	3% helix, 40% strand	—
C	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein	35	31% helix, 0% strand	P59768
B	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	protein	311	0% helix, 43% strand	P62873

Ligands and binding sites

I8B · (2~{S})-2-[[(2~{S})-4-azanyl-2-[(4-methylnaphthalen-1-yl)sulfonylamino]butanoyl]amino]-3-phenyl-propanimidic acid · ligand · chains R

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

Pockets

13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	629	0.80	0.85	68	empty
2	748	0.78	0.82	64	I8B
3	1175	0.71	0.75	81	empty
4	256	0.65	0.82	33	empty
5	54	0.55	0.89	19	empty

Interfaces

6 interfaces between chains.

C–B · 1337 Å² buried · 9 hydrogen bonds · protein-protein
A–B · 1249 Å² buried · 13 hydrogen bonds · protein-protein
R–A · 1098 Å² buried · 12 hydrogen bonds · protein-protein
A–S · 555 Å² buried · 7 hydrogen bonds · protein-protein
S–B · 403 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

7XMT · CryoEM structure of somatostatin receptor 4 (SSTR4) with Gi1 and J-2156 · the same entry in another collection · chain S against S, TM-score 1.00
P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 0.99
P31391 · AlphaFold monomer V2.0 prediction for somatostatin receptor type 4 (P31391) · a predicted model of the same protein · chain R against A, TM-score 0.89
P63096 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.83
P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain C against A, TM-score 0.71

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 P31391
Every structure of UniProt P63096
Every structure of UniProt P59768
Every structure of UniProt P62873
Elsewhere: RCSB PDB 7XMT · PDBe 7XMT · UniProt P31391 · UniProt P63096 · UniProt P59768 · UniProt P62873

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