Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C4  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 24213.52 
• Atom Count: 1638 
• Residue Count: 204 
• Unique protein chains: 1

5KHH

HCN2 CNBD in complex with inosine-3', 5'-cyclic monophosphate (cIMP)

• DOI: 10.2210/pdb5KHH/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2016-06-14 Released: 2016-09-14 
• Deposition Author(s): Ng, L.C.T., Putrenko, I., Baronas, V., Van Petegem, F., Accili, E.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free: 0.263 
• R-Value Work: 0.214 

Literature

Cyclic Purine and Pyrimidine Nucleotides Bind to the HCN2 Ion Channel and Variably Promote C-Terminal Domain Interactions and Opening.

Ng, L.C., Putrenko, I., Baronas, V., Van Petegem, F., Accili, E.A.

(2016) Structure 24: 1629-1642

• PubMed: 27568927 
• DOI: 10.1016/j.str.2016.06.024
• Primary Citation of Related Structures:  
  5KHK, 5KHJ, 5KHI, 5KHG


• PubMed Abstract: 
  

Cyclic AMP is thought to facilitate the opening of the HCN2 channel by binding to a C-terminal domain and promoting or inhibiting interactions between subunits. Here, we correlated the ability of cyclic nucleotides to promote interactions of isolated HCN2 C-terminal domains in solution with their ability to facilitate channel opening. Cyclic IMP, a cyclic purine nucleotide, and cCMP, a cyclic pyrimidine nucleotide, bind to a C-terminal domain containing the cyclic nucleotide-binding domain but, in contrast to other cyclic nucleotides examined, fail to promote its oligomerization, and produce only modest facilitation of opening of the full-length channel. Comparisons between ligand bound structures identify a region between the sixth and seventh β strands and the distal C helix as important for facilitation and tight binding. We propose that promotion of interactions between the C-terminal domains by a given ligand contribute to its ability to facilitate opening of the full-length channel.

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Organizational Affiliation: 

Department of Cellular and Physiological Sciences, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2	A	204	Mus musculus	Mutation(s): 0  Gene Names: Hcn2 (Bcng2, Hac1)
Find proteins for O88703 (Mus musculus) Go to UniProtKB:  O88703

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
6SW	A	Inosine-3',5'-cyclic monophosphate cIMP C10 H11 N4 O7 P DMJWGQPYNRPLGA-KQYNXXCUSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSX	A	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free: 0.263 
• R-Value Work: 0.214 
• Space Group: I 4 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 96.037	α = 90.00
b = 96.037	β = 90.00
c = 115.913	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2016-06-14 
• Released Date: 2016-09-14 
• Deposition Author(s): Ng, L.C.T., Putrenko, I., Baronas, V., Van Petegem, F., Accili, E.A.

Revision History 

• Version 1.0: 2016-09-14
  Type: Initial release
• Version 1.1: 2016-10-19
  Type: Database references