1VJI

Gene Product of At1g76680 from Arabidopsis thaliana

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.206 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.5 of the entry. See complete history. 

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 2Q3R


Literature

X-ray structure of Arabidopsis At1g77680, 12-oxophytodienoate reductase isoform 1.

Fox, B.G., Malone, T.E., Johnson, K.A., Madson, S.E., Aceti, D., Bingman, C.A., Blommel, P.G., Buchan, B., Burns, B., Cao, J., Cornilescu, C.C., Doreleijers, J., Ellefson, J., Frederick, R., Geetha, H., Hruby, D., Jeon, W.B., Kimball, T., Kunert, J., Markley, J.L., Newman, C., Olson, A., Peterson, F.C., Phillips, G.N., Primm, J., Ramirez, B., Rosenberg, N.S., Runnels, M., Seder, K., Shaw, J., Smith, D.W., Sreenath, H., Song, J., Sussman, M.R., Thao, S., Troestler, D., Tyler, E., Tyler, R., Ulrich, E., Vinarov, D., Vojtik, F., Volkman, B.F., Wesenberg, G., Wrobel, R.L., Zhang, J., Zhao, Q., Zolnai, Z.

(2005) Proteins 61: 206-208


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
12-oxophytodienoate reductase (OPR1)372Arabidopsis thalianaMutation(s): 0 
Gene Names: At1g76680
UniProt
Find proteins for Q8LAH7 (Arabidopsis thaliana)
Explore Q8LAH7 
Go to UniProtKB:  Q8LAH7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8LAH7
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FMN
Query on FMN
Download Ideal Coordinates CCD File 
B [auth A]FLAVIN MONONUCLEOTIDE
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.206 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.688α = 90
b = 88.066β = 90
c = 149.334γ = 90
Software Package:
Software NamePurpose
AMoREphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-03-16
    Type: Initial release
  • Version 1.1: 2008-02-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2016-04-06
    Changes: Database references
  • Version 1.4: 2017-10-04
    Changes: Refinement description
  • Version 1.5: 2023-12-27
    Changes: Data collection, Database references, Derived calculations