6MM2 | pdb_00006mm2

Carbon regulatory PII-like protein SbtB from Cyanobium sp. 7001 bound to ATP and calcium

• PDB DOI: https://doi.org/10.2210/pdb6MM2/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Cyanobium sp. PCC 7001
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-09-28 Released: 2019-09-18 
• Deposition Author(s): Kaczmarski, J.A., Jackson, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free: 
  0.163 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.145 (Depositor), 0.150 (DCC) 

Starting Model: experimental

Literature

Structure and function of SbtB from Cyanobium sp. 7001

Jackson, C., Kaczmarski, J.A., Price, D.

(2019) bioRxiv 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 12.07 kDa 
• Atom Count: 988 
• Modeled Residue Count: 99 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbon regulatory PII-like protein SbtB	A	104	Cyanobium sp. PCC 7001	Mutation(s): 0  Gene Names: CPCC7001_1671

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP (Subject of Investigation/LOI)	B [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
CA (Subject of Investigation/LOI)	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free:  0.163 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.145 (Depositor), 0.150 (DCC) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.058	α = 90
b = 52.058	β = 90
c = 95.214	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PDB-REDO	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-09-18 
Deposition Author(s): Kaczmarski, J.A., Jackson, C.

Revision History  

• Version 1.0: 2019-09-18
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description