6U6V

Crystal structure of human PD-1H / VISTA

• PDB DOI: https://doi.org/10.2210/pdb6U6V/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2019-08-30 Released: 2020-01-01 
• Deposition Author(s): Slater, B.T., Han, X., Chen, L., Xiong, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.250 
• R-Value Work: 0.207 
• R-Value Observed: 0.210 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 19.9 kDa 
• Atom Count: 1,212 
• Modelled Residue Count: 147 
• Deposited Residue Count: 174 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
V-type immunoglobulin domain-containing suppressor of T-cell activation	A	174	Homo sapiens	Mutation(s): 0  Gene Names: VSIR, C10orf54, SISP1, VISTA, PP2135, UNQ730/PRO1412
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H7M9 (Homo sapiens) Explore Q9H7M9  Go to UniProtKB:  Q9H7M9
PHAROS:  Q9H7M9 GTEx:  ENSG00000107738

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.250 
• R-Value Work: 0.207 
• R-Value Observed: 0.210 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 28.821	α = 90
b = 55.833	β = 97.69
c = 42.271	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
HKL-2000	data reduction
REFMAC	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-01-01 
Deposition Author(s): Slater, B.T., Han, X., Chen, L., Xiong, Y.

Revision History  

• Version 1.0: 2020-01-01
  Type: Initial release
  
• Version 1.1: 2020-01-22
  Changes: Database references
• Version 1.2: 2020-02-05
  Changes: Database references
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary