7R86

Structure of mouse BAI1 (ADGRB1) in complex with mouse Nogo receptor (RTN4R)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.166 

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Ligand Structure Quality Assessment 


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Literature

Structure of mouse Bai1 (ADGRB1) in complex with mouse Nogo receptor (RTN4R)

Miao, Y.Jude, K.M.Garcia, K.C.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Reticulon-4 receptorA, B285Mus musculusMutation(s): 0 
Gene Names: Rtn4rNgr1Nogor
UniProt
Find proteins for Q99PI8 (Mus musculus)
Explore Q99PI8 
Go to UniProtKB:  Q99PI8
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Vasculostatin-120C, D54Mus musculusMutation(s): 0 
Gene Names: Adgrb1Bai1
UniProt & NIH Common Fund Data Resources
Find proteins for Q3UHD1 (Mus musculus)
Explore Q3UHD1 
Go to UniProtKB:  Q3UHD1
IMPC:  MGI:1933736
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 3
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
beta-D-glucopyranose-(1-3)-alpha-L-fucopyranoseE, F2N/AO-Glycosylation Oligosaccharides Interaction
Small Molecules
Ligands 7 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
G [auth A], H [auth A], Q [auth B], R [auth B]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
PG4
Query on PG4

Download Ideal Coordinates CCD File 
J [auth A]TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
 Ligand Interaction
MAN (Subject of Investigation/LOI)
Query on MAN

Download Ideal Coordinates CCD File 
AA [auth D], W [auth C], X [auth C], Z [auth D]alpha-D-mannopyranose
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
PAB
Query on PAB

Download Ideal Coordinates CCD File 
I [auth A]4-AMINOBENZOIC ACID
C7 H7 N O2
ALYNCZNDIQEVRV-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], S [auth B], T [auth B], Y [auth C]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

Download Ideal Coordinates CCD File 
U [auth B]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
CL
Query on CL

Download Ideal Coordinates CCD File 
P [auth A], V [auth B]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.166 
  • Space Group: P 1 21 1
  • Diffraction Data DOI: 10.15785/SBGRID/856 SBGrid
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.468α = 90
b = 95.315β = 105.39
c = 69.682γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-10
    Type: Initial release