6NEI | pdb_00006nei

Scoulerine 9-O-methyltransferase from Thalictrum flavum

• PDB DOI: https://doi.org/10.2210/pdb6NEI/pdb

• Classification: TRANSFERASE
• Organism(s): Thalictrum flavum subsp. glaucum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-12-17 Released: 2019-12-18 
• Deposition Author(s): Valentic, T.R., Smolke, C.D., Payne, J.T.
• Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.215 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.176 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: experimental

Literature

Structural and functional characterization of the scoulerine 9-O methyltransferase from Thalictrum flavum.

Valentic, T.R., Smolke, C.S., Payne, J.T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: homology

Macromolecule Content 

• Total Structure Weight: 81.79 kDa 
• Atom Count: 5,929 
• Modeled Residue Count: 690 
• Deposited Residue Count: 750 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
(S)-scoulerine 9-O-methyltransferase	A, B	375	Thalictrum flavum subsp. glaucum	Mutation(s): 0  EC: 2.1.1.117
UniProt
Find proteins for Q5C9L2 (Thalictrum flavum subsp. glaucum) Explore Q5C9L2  Go to UniProtKB:  Q5C9L2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.215 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.176 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.628	α = 90
b = 92.439	β = 90
c = 135.283	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-12-18 
Deposition Author(s): Valentic, T.R., Smolke, C.D., Payne, J.T.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	DP1AT007886-05

Revision History  

• Version 1.0: 2019-12-18
  Type: Initial release
  
• Version 2.0: 2020-04-08
  Type: Coordinate replacement
  Reason: Ligand geometry
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Experimental preparation, Refinement description, Structure summary
• Version 2.1: 2024-03-13
  Changes: Data collection, Database references
• Version 2.2: 2024-04-03
  Changes: Refinement description