5LUG

Crystal structure of human Spindlin-2B protein in complex with ART(M3L)QTA(2MR)KS peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Crystal structure of human Spindlin-2B protein in complex with ART(M3L)QTA(2MR)KS peptide

Srikannathasan, V.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Spindlin-like protein 2, isoform CRA_aA, B, C, D222Homo sapiensMutation(s): 0 
Gene Names: SPIN-2hCG_1642309SPIN2BSPIN2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BPZ2 (Homo sapiens)
Explore Q9BPZ2 
Go to UniProtKB:  Q9BPZ2
PHAROS:  Q9BPZ2
GTEx:  ENSG00000186787 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BPZ2
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ALA-ARG-THR-M3L-GLN-THR-ALA-2MR-LYS-SERH [auth E],
E [auth F],
F [auth G],
G [auth H]
10Homo sapiensMutation(s): 0 
Gene Names: 
UniProt & NIH Common Fund Data Resources
Find proteins for P68431 (Homo sapiens)
Explore P68431 
Go to UniProtKB:  P68431
PHAROS:  P68431
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP68431
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2MR
Query on 2MR

Download Ideal Coordinates CCD File 
K [auth B]N3, N4-DIMETHYLARGININE
C8 H18 N4 O2
HVPFXCBJHIIJGS-LURJTMIESA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
I [auth A],
J [auth A],
L [auth B],
M [auth B],
N [auth B],
I [auth A],
J [auth A],
L [auth B],
M [auth B],
N [auth B],
O [auth D]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
2MR
Query on 2MR
E [auth F],
F [auth G],
G [auth H],
H [auth E]
L-PEPTIDE LINKINGC8 H18 N4 O2ARG
M3L
Query on M3L
E [auth F],
F [auth G],
G [auth H],
H [auth E]
L-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.533α = 90
b = 81.225β = 99.86
c = 93.967γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-09-20
    Type: Initial release
  • Version 1.1: 2018-01-31
    Changes: Database references