6U7G
HCoV-229E RBD Class V in complex with human APN
- PDB DOI: https://doi.org/10.2210/pdb6U7G/pdb
- Classification: HYDROLASE/VIRAL PROTEIN
- Organism(s): Homo sapiens, Human coronavirus 229E
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2019-09-02 Released: 2019-11-13 
- Funding Organization(s): Canadian Institutes of Health Research (CIHR)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.35 Å
- R-Value Free: 0.218 
- R-Value Work: 0.179 
- R-Value Observed: 0.181 
wwPDB Validation   3D Report Full Report
Currently 6U7G does not have a validation slider image.
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Aminopeptidase N | 906 | Homo sapiens | Mutation(s): 0  Gene Names: ANPEP, APN, CD13, PEPN EC: 3.4.11.2 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P15144 (Homo sapiens) Explore P15144  Go to UniProtKB:  P15144 | |||||
PHAROS:  P15144 GTEx:  ENSG00000166825  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P15144 | ||||
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 |
Spike protein | 145 | Human coronavirus 229E | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q1HVK2 (Human coronavirus 229E) Explore Q1HVK2  Go to UniProtKB:  Q1HVK2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q1HVK2 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | J [auth A] K [auth A] L [auth A] M [auth A] N [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
ZN Query on ZN | I [auth A], O [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.35 Å
- R-Value Free: 0.218 
- R-Value Work: 0.179 
- R-Value Observed: 0.181 
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/m36u7g
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 99.555 | α = 90 |
b = 98.682 | β = 104.6 |
c = 147.525 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
PHASER | phasing |
PDB_EXTRACT | data extraction |
Structure Validation
View Full Validation Report
Currently 6U7G does not have a validation slider image.
Entry History & Funding Information
Deposition Data
- Released Date: 2019-11-13  Deposition Author(s): Tomlinson, A., Li, Z., Rini, J.M.
Funding Organization | Location | Grant Number |
---|---|---|
Canadian Institutes of Health Research (CIHR) | Canada | -- |
Revision History (Full details and data files)
- Version 1.0: 2019-11-13
Type: Initial release - Version 1.1: 2020-01-08
Changes: Author supporting evidence - Version 1.2: 2020-05-06
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-10-11
Changes: Data collection, Database references, Refinement description, Structure summary