6NM8

IgV-V76T BMS compound 105

  • Classification: immune system/inhibitor
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli
  • Mutation(s): 

  • Deposited: 2019-01-10 Released: 2019-02-20 
  • Deposition Author(s): Perry, E., Zhao, B., Fesik, S.
  • Funding Organization(s): National Institutes of Health/National Center for Research Resources; National Science Foundation (United States); Department of Energy (United States) 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.792 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Fragment-based screening of programmed death ligand 1 (PD-L1).

Perry, E.Mills, J.J.Zhao, B.Wang, F.Sun, Q.Christov, P.P.Tarr, J.C.Rietz, T.A.Olejniczak, E.T.Lee, T.Fesik, S.

(2019) Bioorg. Med. Chem. Lett. 29: 786-790


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Programmed cell death 1 ligand 1
A, B
129Homo sapiensMutation(s): 1 
Gene Names: CD274 (B7H1, PDCD1L1, PDCD1LG1, PDL1)
Find proteins for Q9NZQ7 (Homo sapiens)
Go to Gene View: CD274
Go to UniProtKB:  Q9NZQ7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
KSD
Query on KSD

Download SDF File 
Download CCD File 
A
N-({2,6-dimethoxy-4-[(2-methyl[1,1'-biphenyl]-3-yl)methoxy]phenyl}methyl)-D-alanine
C26 H29 N O5
JAVOOZFIZRTIMB-GOSISDBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.792 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.195 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 33.455α = 90.00
b = 54.604β = 90.00
c = 141.272γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Center for Research ResourcesUnited States5T32GM065086
National Science Foundation (United States)United States0922862
National Institutes of Health/National Center for Research ResourcesUnited StatesS10 RR025677
National Institutes of Health/National Center for Research ResourcesUnited StatesS10 RR026915
Department of Energy (United States)United StatesDE-AC02-06CH11357

Revision History 

  • Version 1.0: 2019-02-20
    Type: Initial release
  • Version 1.1: 2019-02-27
    Type: Data collection, Database references