Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 81.17 kDa 
• Atom Count: 5606 
• Modelled Residue Count: 676 
• Deposited Residue Count: 706 
• Unique protein chains: 1

5MBE

Structure of a bacterial light-regulated adenylyl cylcase

• PDB DOI: 10.2210/pdb5MBE/pdb

• Classification: LYASE
• Organism(s): Beggiatoa sp. PS
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-11-08 Released: 2017-04-05 
• Deposition Author(s): Lindner, R., Hartmann, E., Tarnawski, M., Winkler, A., Frey, D., Reinstein, J., Meinhart, A., Schlichting, I.
• Funding Organization(s): DFG

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.231 
• R-Value Work: 0.196 
• R-Value Observed: 0.197 

Literature

Photoactivation Mechanism of a Bacterial Light-Regulated Adenylyl Cyclase.

Lindner, R., Hartmann, E., Tarnawski, M., Winkler, A., Frey, D., Reinstein, J., Meinhart, A., Schlichting, I.

(2017) J Mol Biol 429: 1336-1351

• PubMed: 28336405 
• DOI: 10.1016/j.jmb.2017.03.020
• Primary Citation of Related Structures:  
  5M27, 5M2A, 5MBB, 5MBC, 5MBD, 5MBE, 5MBG, 5MBH, 5MBJ, 5MBK, 5NBY


• PubMed Abstract: 
  

Light-regulated enzymes enable organisms to quickly respond to changing light conditions. We characterize a photoactivatable adenylyl cyclase (AC) from Beggiatoa sp. (bPAC) that translates a blue light signal into the production of the second messenger cyclic AMP. bPAC contains a BLUF photoreceptor domain that senses blue light using a flavin chromophore, linked to an AC domain. We present a dark state crystal structure of bPAC that closely resembles the recently published structure of the homologous OaPAC from Oscillatoria acuminata. To elucidate the structural mechanism of light-dependent AC activation by the BLUF domain, we determined the crystal structures of illuminated bPAC and of a pseudo-lit state variant. We use hydrogen-deuterium exchange measurements of secondary structure dynamics and hypothesis-driven point mutations to trace the activation pathway from the chromophore in the BLUF domain to the active site of the cyclase. The structural changes are relayed from the residues interacting with the excited chromophore through a conserved kink of the BLUF β-sheet to a tongue-like extrusion of the AC domain that regulates active site opening and repositions catalytic residues. Our findings not only show the specific molecular pathway of photoactivation in BLUF-regulated ACs but also have implications for the general understanding of signaling in BLUF domains and of the activation of ACs.

---

Organizational Affiliation: 

Max Planck Institute for Medical Research, Jahnstr, 29, 69120 Heidelberg, Germany. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta subunit of photoactivated adenylyl cyclase	A, B	353	Beggiatoa sp. PS	Mutation(s): 0  Gene Names: BGP_1043
UniProt
Find proteins for A7BT71 (Beggiatoa sp. PS) Explore A7BT71  Go to UniProtKB:  A7BT71

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	C [auth A], D [auth B]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.231 
• R-Value Work: 0.196 
• R-Value Observed: 0.197 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.48	α = 105.79
b = 56.31	β = 103.67
c = 77.45	γ = 102.7

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-11-08 
• Released Date: 2017-04-05 
Deposition Author(s): Lindner, R., Hartmann, E., Tarnawski, M., Winkler, A., Frey, D., Reinstein, J., Meinhart, A., Schlichting, I.

---

Funding Organization	Location	Grant Number
DFG	Germany	FOR1279

Revision History  

• Version 1.0: 2017-04-05
  Type: Initial release
  
• Version 1.1: 2017-05-03
  Changes: Database references