5MGS

Human receptor NKR-P1 in deglycosylated form, extracellular domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.157 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Structure of human NKR-P1:LLT1 receptor complex

Blaha, J.Skalova, T.Vanek, O.Stransky, J.Koval, T.Hasek, J.Yuguang, Z.Harlos, K.Dohnalek, J.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Killer cell lectin-like receptor subfamily B member 1A, B, C, D, E, F, G, H146Homo sapiensMutation(s): 0 
Gene Names: KLRB1CLEC5BNKRP1A
UniProt & NIH Common Fund Data Resources
Find proteins for Q12918 (Homo sapiens)
Explore Q12918 
Go to UniProtKB:  Q12918
PHAROS:  Q12918
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
I [auth A] , J [auth A] , K [auth B] , L [auth B] , M [auth C] , N [auth C] , O [auth C] , P [auth D] , 
I [auth A], J [auth A], K [auth B], L [auth B], M [auth C], N [auth C], O [auth C], P [auth D], Q [auth E], R [auth E], S [auth F], T [auth F], U [auth G], V [auth G], W [auth H], X [auth H]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.157 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.806α = 101.88
b = 68.404β = 100.72
c = 101.564γ = 100.64
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Czech Science FoundationCzech Republic15-15181S
Ministry of Education, Youth and Sports of the Czech RepublicCzech RepublicLG14009

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-23
    Type: Initial release
  • Version 1.1: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary