6J8I
Structure of human voltage-gated sodium channel Nav1.7 in complex with auxiliary beta subunits, ProTx-II and tetrodotoxin (Y1755 up)
- PDB DOI: https://doi.org/10.2210/pdb6J8I/pdb
- EM Map EMD-9782: EMDB EMDataResource
- Classification: MEMBRANE PROTEIN
- Organism(s): Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): Yes 
- Membrane Protein: Yes  OPMPDBTMmpstruc
- Deposited: 2019-01-19 Released: 2019-02-27 
- Funding Organization(s): Ministry of Science and Technology (China), National Natural Science Foundation of China
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.20 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
wwPDB Validation   3D Report Full Report
This is version 2.0 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Sodium channel subunit beta-2 | A [auth C] | 215 | Homo sapiens | Mutation(s): 0  Gene Names: SCN2B, UNQ326/PRO386 Membrane Entity: Yes  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O60939 (Homo sapiens) Explore O60939  Go to UniProtKB:  O60939 | |||||
PHAROS:  O60939 GTEx:  ENSG00000149575  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O60939 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Sodium channel protein type 9 subunit alpha | B [auth A] | 2,031 | Homo sapiens | Mutation(s): 1  Gene Names: SCN9A, NENA Membrane Entity: Yes  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15858 (Homo sapiens) Explore Q15858  Go to UniProtKB:  Q15858 | |||||
PHAROS:  Q15858 GTEx:  ENSG00000169432  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15858 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Sodium channel subunit beta-1 | C [auth B] | 218 | Homo sapiens | Mutation(s): 0  Gene Names: SCN1B Membrane Entity: Yes  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q07699 (Homo sapiens) Explore Q07699  Go to UniProtKB:  Q07699 | |||||
PHAROS:  Q07699 GTEx:  ENSG00000105711  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q07699 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
9SR Query on 9SR | I [auth A] | (1R,5R,6R,7R,9S,11S,12S,13S,14S)-3-amino-14-(hydroxymethyl)-8,10-dioxa-2,4-diazatetracyclo[7.3.1.1~7,11~.0~1,6~]tetradec-3-ene-5,9,12,13,14-pentol (non-preferred name) C11 H17 N3 O8 CFMYXEVWODSLAX-QOZOJKKESA-N | |||
NAG Query on NAG | F [auth C] G [auth A] H [auth A] J [auth B] K [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.20 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
Entry History & Funding Information
Deposition Data
Funding Organization | Location | Grant Number |
---|---|---|
Ministry of Science and Technology (China) | China | 2015CB910101 |
Ministry of Science and Technology (China) | China | 2016YFA0500402 |
National Natural Science Foundation of China | China | 31621092 |
National Natural Science Foundation of China | China | 31630017 |
National Natural Science Foundation of China | China | 81861138009 |
Revision History (Full details and data files)
- Version 1.0: 2019-02-27
Type: Initial release - Version 1.1: 2019-04-10
Changes: Data collection, Database references - Version 1.2: 2019-11-06
Changes: Data collection, Other - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary