6QY6

Crystal structure of the CCA-adding enzyme of a psychrophilic organism

• PDB DOI: https://doi.org/10.2210/pdb6QY6/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Planococcus halocryophilus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-03-08 Released: 2020-03-25 
• Deposition Author(s): de Wijn, R., Rollet, K., Bluhm, A., Hennig, O., Betat, H., Moerl, M., Lorber, B., Sauter, C.
• Funding Organization(s): French National Research Agency, French Infrastructure for Integrated Structural Biology

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.232 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 

Literature

CCA-addition in the cold: Structural characterization of the psychrophilic CCA-adding enzyme from the permafrost bacterium Planococcus halocryophilus

de Wijn, R., Rollet, K., Ernst, F.G., Wellner, K., Betat, H., Morl, M., Sauter, C.

(2021) Comput Struct Biotechnol J 

• DOI: https://doi.org/10.1016/j.csbj.2021.10.018

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: SAXS, gel filtration

Macromolecule Content

• Total Structure Weight: 48.95 kDa 
• Atom Count: 3,310 
• Modelled Residue Count: 373 
• Deposited Residue Count: 420 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CCA-adding enzyme	A	420	Planococcus halocryophilus	Mutation(s): 0  Gene Names: BBI08_05760 EC: 2.7.7.72
UniProt
Find proteins for A0A1C7DQ98 (Planococcus halocryophilus) Explore A0A1C7DQ98  Go to UniProtKB:  A0A1C7DQ98

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
GOL	C [auth A], D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	E [auth A], F [auth A], G [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.232 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.031	α = 90
b = 70.031	β = 90
c = 291.59	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-03-25 
Deposition Author(s): de Wijn, R., Rollet, K., Bluhm, A., Hennig, O., Betat, H., Moerl, M., Lorber, B., Sauter, C.

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Funding Organization	Location	Grant Number
French National Research Agency	France	ANR-10-LABX-0036_NETRNA
French Infrastructure for Integrated Structural Biology	France	ANR-10-INSB-05

Revision History  

• Version 1.0: 2020-03-25
  Type: Initial release
  
• Version 1.1: 2020-12-16
  Changes: Structure summary
• Version 1.2: 2021-11-03
  Changes: Data collection, Database references
• Version 1.3: 2024-01-24
  Changes: Data collection, Refinement description