7WIG

Cryo-EM structure of the L-054,264-bound human SSTR2-Gi1 complex

PDB DOI: https://doi.org/10.2210/pdb7WIG/pdb
EM Map EMD-32529: EMDB EMDataResource

Classification: STRUCTURAL PROTEIN
Organism(s): Homo sapiens, Rattus norvegicus, Bos taurus, synthetic construct
Expression System: Spodoptera frugiperda, Trichoplusia ni
Mutation(s): No
Membrane Protein: Yes OPMPDBTMmpstruc

Deposited: 2022-01-03 Released: 2022-06-01
Deposition Author(s): Chen, L., Wang, W., Dong, Y., Shen, D., Guo, J., Qin, J., Zhang, H., Shen, Q., Zhang, Y., Mao, C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.70 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structures of the endogenous peptide- and selective non-peptide agonist-bound SSTR2 signaling complexes.

Chen, L.N., Wang, W.W., Dong, Y.J., Shen, D.D., Guo, J., Yu, X., Qin, J., Ji, S.Y., Zhang, H., Shen, Q., He, Q., Yang, B., Zhang, Y., Li, Q., Mao, C.

(2022) Cell Res 32: 785-788

PubMed: 35578016 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41422-022-00669-z
Primary Citation of Related Structures:
7WIC, 7WIG

Organizational Affiliation

Department of Biophysics and Department of Pathology of Sir Run Run Shaw Hospital, Zhejiang University, School of Medicine, Hangzhou, Zhejiang, China.

Macromolecule Content

Total Structure Weight: 156.78 kDa
Atom Count: 8,931
Modelled Residue Count: 1,139
Deposited Residue Count: 1,407
Unique protein chains: 5

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Somatostatin receptor type 2	A [auth R]	369	Homo sapiens	Mutation(s): 0 Gene Names: SSTR2 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P30874 (Homo sapiens) Explore P30874 Go to UniProtKB: P30874
PHAROS: P30874 GTEx: ENSG00000180616
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P30874
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	B [auth A]	354	Homo sapiens	Mutation(s): 0 Gene Names: GNAI1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens) Explore P63096 Go to UniProtKB: P63096
PHAROS: P63096 GTEx: ENSG00000127955
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P63096
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C [auth B]	345	Rattus norvegicus	Mutation(s): 0 Gene Names: Gnb1
UniProt
Find proteins for P54311 (Rattus norvegicus) Explore P54311 Go to UniProtKB: P54311
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P54311
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Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	D [auth G]	70	Bos taurus	Mutation(s): 0 Gene Names: GNG2 Membrane Entity: Yes
UniProt
Find proteins for P63212 (Bos taurus) Explore P63212 Go to UniProtKB: P63212
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P63212
Sequence Annotations Expand
Reference Sequence

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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
single Fab chain (svFv16)	E [auth S]	269	synthetic construct	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
9FI (Subject of Investigation/LOI) Query on 9FI Download Ideal Coordinates CCD File SDF format, chain F [auth R] MOL2 format, chain F [auth R]	F [auth R]	~{N}-[(2~{R})-1-[[(1~{R},3~{S})-3-(aminomethyl)cyclohexyl]methylamino]-3-(1~{H}-indol-3-yl)-1-oxidanylidene-propan-2-yl]spiro[indene-1,4'-piperidine]-1'-carboxamide C₃₃ H₄₁ N₅ O₂ DAMXHAMKVXERLM-FVBCXUTKSA-N		Interactions Focus chain F [auth R] Interactions & Density Focus chain F [auth R]