6MVL

Crystal structure of VISTA bound to a pH-selective antibody Fab fragment

• PDB DOI: https://doi.org/10.2210/pdb6MVL/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli, Homo sapiens
• Mutation(s): Yes 


• Deposited: 2018-10-26 Released: 2019-10-23 
• Deposition Author(s): Critton, D.A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.61 Å
• R-Value Free: 0.225 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 68.4 kDa 
• Atom Count: 5,135 
• Modelled Residue Count: 568 
• Deposited Residue Count: 613 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
V-type immunoglobulin domain-containing suppressor of T-cell activation	A	169	Homo sapiens	Mutation(s): 3  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

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody Fab fragment heavy chain	B [auth H]	229	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody Fab fragment light chain	C [auth L]	215	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	D [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	E [auth A], F [auth A], G [auth A], H [auth A], I [auth H], J [auth H], K [auth H], L [auth H], M [auth H], N [auth H], O [auth L], P [auth L], Q [auth L], R [auth L]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.61 Å
• R-Value Free: 0.225 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 
• Space Group: I 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.166	α = 90
b = 125.856	β = 90
c = 192.04	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-10-23 
Deposition Author(s): Critton, D.A.

Revision History  

• Version 1.0: 2019-10-23
  Type: Initial release
  
• Version 1.1: 2019-11-06
  Changes: Data collection, Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary