10/10/23, 4:25 PM
`
`RCSB PDB - 5OYL: VSV G CR2
`
` Display Files
`
` Download Files
`
` Data API
`
`
` 5OYL
`
`
`
`VSV G CR2
`PDB DOI: https://doi.org/10.2210/pdb5OYL/pdb
`Classification: VIRAL PROTEIN
`Organism(s): Recombinant vesicular stomatitis Indiana virus rVSV-G/GFP, Homo sapiens
`Expression System: Escherichia coli
`Mutation(s): No
`
`Deposited: 2017-09-11 Released: 2018-03-21
`Deposition Author(s): Albertini, A.A., Belot, L., Legrand, P., Gaudin, Y.
`Funding Organization(s): French National Research Agency
`
`wwPDB Validation
`
` 3D Report Full Report
`
`Experimental Data Snapshot
`Method: X-RAY DIFFRACTION
`Resolution: 2.25 Å
`R-Value Free: 0.224
`R-Value Work: 0.188
`R-Value Observed: 0.190
`
`Ligand Structure Quality Assessment
`
`1 Better
`Worse 0
`Ligand structure goodness of fit to experimental data
`
`This is version 1.2 of the entry. See complete history.
`
`Literature
`
`Structural basis for the recognition of LDL-receptor family members by VSV
`glycoprotein.
`Nikolic, J., Belot, L., Raux, H., Legrand, P., Gaudin, Y., A Albertini, A.
`(2018) Nat Commun 9: 1029-1029
`PubMed: 29531262
`DOI: https://doi.org/10.1038/s41467-018-03432-4
`Primary Citation of Related Structures:
`5OY9, 5OYL
`
`PubMed Abstract:
`
`
`
`Biological Assembly 1
`
`
`
`
`
`https://www.rcsb.org/structure/5oyl
`
`1/4
`
`Page 1 of 4
`
`KELONIA EXHIBIT 1026
`
`
`
`RCSB PDB - 5OYL: VSV G CR2
`
` Display Files
`
` Download Files
`
` Data API
`
`
` 5OYL
`
`
`
`VSV G CR2
`PDB DOI: https://doi.org/10.2210/pdb5OYL/pdb
`Classification: VIRAL PROTEIN
`Organism(s): Recombinant vesicular stomatitis Indiana virus rVSV-G/GFP, Homo sapiens
`Expression System: Escherichia coli
`Mutation(s): No
`
`Deposited: 2017-09-11 Released: 2018-03-21
`Deposition Author(s): Albertini, A.A., Belot, L., Legrand, P., Gaudin, Y.
`Funding Organization(s): French National Research Agency
`
`wwPDB Validation
`
` 3D Report Full Report
`
`Experimental Data Snapshot
`Method: X-RAY DIFFRACTION
`Resolution: 2.25 Å
`R-Value Free: 0.224
`R-Value Work: 0.188
`R-Value Observed: 0.190
`
`Ligand Structure Quality Assessment
`
`1 Better
`Worse 0
`Ligand structure goodness of fit to experimental data
`
`This is version 1.2 of the entry. See complete history.
`
`Literature
`
`Structural basis for the recognition of LDL-receptor family members by VSV
`glycoprotein.
`Nikolic, J., Belot, L., Raux, H., Legrand, P., Gaudin, Y., A Albertini, A.
`(2018) Nat Commun 9: 1029-1029
`PubMed: 29531262
`DOI: https://doi.org/10.1038/s41467-018-03432-4
`Primary Citation of Related Structures:
`5OY9, 5OYL
`
`PubMed Abstract:
`
`
`
`Biological Assembly 1
`
`
`
`
`
`https://www.rcsb.org/structure/5oyl
`
`1/4
`
`Page 1 of 4
`
`KELONIA EXHIBIT 1026
`
`
`
`10/10/23, 4:25 PM
`
`RCSB PDB - 5OYL: VSV G CR2
`
` 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction
`
`Global Symmetry: Asymmetric - C1
`Global Stoichiometry: Hetero 2-mer - A1B1
`
`Find Similar Assemblies
`
`Biological assembly 1 assigned by authors and generated by PISA (software)
`
`Macromolecules
`
`Find similar proteins by:
`
`Sequence
`
` (by identity cutoff) | 3D Structure
`
`Entity ID: 1
`
`Molecule
`
`Glycoprotein
`
`UniProt
`
`Chains
`
`A
`
`Sequence Length
`
`Organism
`
`410
`
`Recombinant vesicu
`stomatitis Indiana v
`rVSV-G/GFP
`
`Find proteins for B7UCZ5 (Recombinant vesicular stomatitis Indiana virus rVSV-G/GFP)
`Explore B7UCZ5
`
`Entity Groups
`
`Sequence Clusters
`
`UniProt Group
`
`Protein Feature View
`
`30% Identity
`
`50% Identity
`
`70% Identity
`
`90% Identity
`
`95% Identity
`
`10
`
`
`
`
`
`
`
`
`
`
`
`B7UCZ5
`
`
`
`Reference Sequence
`
`5OYL_1
`
`0
`
`50
`
`100
`
`150
`
`200
`
`5OYL_1
`UNIPROT B7UCZ5
`MODIFIED MONOMER
`
`HYDROPATHY
`
`DISORDER
`
`DISORDERED BINDING
`
`PFAM
`
`Find similar proteins by:
`
`Sequence
`
` (by identity cutoff) | 3D Structure
`
`Entity ID: 2
`
`https://www.rcsb.org/structure/5oyl
`
`2/4
`
`Page 2 of 4
`
`
`
`10/10/23, 4:25 PM
`
`Molecule
`
`Low-density lipoprotein
`receptor
`
`Chains
`
`B [auth D]
`
`RCSB PDB - 5OYL: VSV G CR2
`
`Sequence Length
`
`Organism
`
`46
`
`Homo sapiens
`
`UniProt & NIH Common Fund Data Resources
`
`Find proteins for P01130 (Homo sapiens)
`Explore P01130
`
`PHAROS: P01130
`
`Entity Groups
`
`Sequence Clusters
`
`UniProt Group
`
`Protein Feature View
`
`30% Identity
`
`50% Identity
`
`70% Identity
`
`90% Identity
`
`95% Identity
`
`10
`
`
`
`
`
`
`
`
`
`
`
`P01130
`
`
`
`Reference Sequence
`
`5OYL_2
`
`0
`
`G
`
`P
`
`L
`
`G
`
`5
`S
`
`V
`
`T
`
`C
`
`K
`
`10
`S
`
`G
`
`D
`
`F
`
`S
`
`15
`C
`
`C
`
`G
`
`G
`
`G
`
`G
`
`R
`
`R
`
`V
`
`V
`
`20
`N
`
`N
`
`R
`
`R
`
`C
`
`C
`
`I
`
`I
`
`P
`
`P
`
`25
`Q
`
`Q
`
`S
`
`V
`
`T
`
`C
`
`K
`
`S
`
`G
`
`D
`
`F
`
`S
`
`5OYL_2
`UNIPROT P01130
`ARTIFACT
`
`HYDROPATHY
`
`DISORDER
`
`DISORDERED BINDING
`
`PFAM
`
`Small Molecules
`
`Ligands 3 Unique
`
`ID
`
`Chains Name / Formula / InChI
`Key
`
`2D Diagram
`
`3D Interactions
`
`NAG
`
`C [auth
`A],
`D [auth
`A],
`E [auth
`Download Instance Coordinates
`A]
`
`2-acetamido-2-deoxy-
`beta-D-glucopyranose
`C H N O
`8
`15
`6
`OVRNDRQMDRJTHS-
`FMDGEEDCSA-N
`
`GOL
`
`GLYCEROL
`C H O
`3
`8
`3
`PEDCQBHIVMGVHV-
`UHFFFAOYSA-N
`
`Download Instance Coordinates
`
`CA
`
`F [auth
`A],
`N [auth
`D]
`Download Instance Coordinates
`
`CALCIUM ION
`Ca
`BHPQYMZQTOCNFJ-
`UHFFFAOYSA-N
`
` Ligand Interaction
`
` Ligand Interaction
`
` Ligand Interaction
`
`OH
`
`NH
`
`O
`
`(R)
`
`(R)
`
`(S)
`
`OH
`
`(R)
`
`(R)
`
`O
`
`OH
`
`OH
`
`OH
`
`OH
`
`OH
`
`Ca+2
`
`Modified Residues 1 Unique
`ID
`Chains Type
`
`Formula
`
`2D Diagram
`
`Parent
`
`MLZ
`
`A
`
`L-PEPTIDE LINKING
`
`C H N O
`7
`16
`2
`
`2
`
`LYS
`
`H
`
`O O
`
`(S)
`
`NH2
`
`NH
`
`Experimental Data & Validation
`
`Experimental Data
`Method: X-RAY DIFFRACTION
`Resolution: 2.25 Å
`
`https://www.rcsb.org/structure/5oyl
`
`3/4
`
`Page 3 of 4
`
`
`
`10/10/23, 4:25 PM
`
`RCSB PDB - 5OYL: VSV G CR2
`
`R-Value Free: 0.224
`R-Value Work: 0.188
`R-Value Observed: 0.190
`Space Group: H 3 2
`Unit Cell:
`Length ( Å )
`
`a = 90.04
`
`b = 90.04
`
`c = 515.78
`
`Software Package:
`Software Name
`
`REFMAC
`
`PDB_EXTRACT
`
`XDS
`
`XSCALE
`
`MOLREP
`
`Structure Validation
`View Full Validation Report
`
`Angle ( ˚ )
`
`α = 90
`
`β = 90
`
`γ = 120
`
`Purpose
`
`refinement
`
`data extraction
`
`data reduction
`
`data scaling
`
`phasing
`
`Ligand Structure Quality Assessment
`
`Worse 0
`
`1 Better
`
`Ligand structure goodness of fit to experimental data
`
`Entry History & Funding Information
`
`Deposition Data
`Released Date: 2018-03-21
`Deposition Author(s): Albertini, A.A., Belot, L.,
`Legrand, P., Gaudin, Y.
`
`Funding Organization
`
`Location Grant
`Number
`
`French National Research
`Agency
`
`France
`
`ANR-
`15-
`CE11-
`0020
`
`Revision History (Full details and data files)
`Version 1.0: 2018-03-21
`Type: Initial release
`Version 1.1: 2018-04-18
`Changes: Data collection, Database
`references
`Version 1.2: 2020-07-29
`Type: Remediation
`Reason: Carbohydrate remediation
`Changes: Data collection, Derived
`calculations, Structure summary
`
`RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of
`Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and
`National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.
`
`https://www.rcsb.org/structure/5oyl
`
`4/4
`
`Page 4 of 4
`
`
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