1QIW

Calmodulin complexed with N-(3,3,-diphenylpropyl)-N'-[1-R-(3,4-bis-butoxyphenyl)-ethyl]-propylenediamine (DPD)

DOI: 10.2210/pdb1QIW/pdb

Classification: CALCIUM-BINDING PROTEIN
Organism(s): Bos taurus
Mutation(s): No

Deposited: 1999-06-17 Released: 2000-03-28
Deposition Author(s): Harmat, V., Bocskei, Z.S., Vertessy, B.G., Ovadi, J., Naray-Szabo, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.317
R-Value Work: 0.232
R-Value Observed: 0.232

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

A New Potent Calmodulin Antagonist with Arylalkylamine Structure: Crystallographic, Spectroscopic and Functional Studies

Harmat, V., Bocskei, Z.S., Naray-Szabo, G., Bata, I., Csutor, A.S., Hermecz, I., Aranyi, P., Szabo, B., Liliom, K., Vertessy, B.G., Ovadi, J.

(2000) J Mol Biol 297: 747

PubMed: 10731425 Search on PubMed
DOI: 10.1006/jmbi.2000.3607
Primary Citation of Related Structures:
1QIW, 1QIV

PubMed Abstract:

An arylalkylamine-type calmodulin antagonist, N-(3, 3-diphenylpropyl)-N'-[1-R-(3, 4-bis-butoxyphenyl)ethyl]-propylene-diamine (AAA) is presented and its complexes with calmodulin are characterized in solution and in the crystal. Near-UV circular dichroism spectra show that AAA binds to calmodulin with 2:1 stoichiometry in a Ca(2+)-dependent manner. The crystal structure with 2:1 stoichiometry is determined to 2.64 A resolution. The binding of AAA causes domain closure of calmodulin similar to that obtained with trifluoperazine. Solution and crystal data indicate that each of the two AAA molecules anchors in the hydrophobic pockets of calmodulin, overlapping with two trifluoperazine sites, i.e. at a hydrophobic pocket and an interdomain site. The two AAA molecules also interact with each other by hydrophobic forces. A competition enzymatic assay has revealed that AAA inhibits calmodulin-activated phosphodiesterase activity at two orders of magnitude lower concentration than trifluoperazine. The apparent dissociation constant of AAA to calmodulin is 18 nM, which is commensurable with that of target peptides. On the basis of the crystal structure, we propose that the high-affinity binding is mainly due to a favorable entropy term, as the AAA molecule makes multiple contacts in its complex with calmodulin.

Related Citations:

Crystallization and Preliminary Diffraction Analysis of Ca(2+)-Calmodulin-Drug and Apocalmodulin-Drug Complexes.
Vertessy, B.G., Bocskei, Z.S., Harmath, V., Naray-Szabo, G., Ovadi, J.
(1997) Proteins 28: 131

Trifluoperazine-Induced Conformational Change in Ca (2+)-Calmodulin
Vandonselaar, M., Hickie, R.A., Quail, J.W., Delbaere, L.T.J.
(1994) Nat Struct Biol 1: 795

Drug Binding by Calmodulin: Crystal Structure of a Calmodulin-Trifluoperazine Complex
Cook, W.J., Walter, L.J., Walter, M.R.
(1994) Biochemistry 33: 15259

Organizational Affiliation:

Department of Theoretical Chemistry, Loránd Eötvös University, Budapest 112, H-1518, Hungary. harmatv@ludens.elte.hu

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CALMODULIN	A, B	148	Bos taurus	Mutation(s): 0 Gene Names: CALM, CAM
Find proteins for P62157 (Bos taurus) Explore P62157 Go to UniProtKB: P62157
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
DPD Query on DPD Download Ideal Coordinates CCD File SDF format, chain G [A] SDF format, chain H [A] SDF format, chain M [B] MOL2 format, chain G [A] MOL2 format, chain H [A] MOL2 format, chain M [B]	A, B	N-(3,3,-DIPHENYLPROPYL)-N'-[1-R-(2 3,4-BIS-BUTOXYPHENYL)-ETHYL]-PROPYLENEDIAMINE C₃₄ H₄₈ N₂ O₂ VSFIKHFVWBEFKU-MUUNZHRXSA-N		Ligand Interaction
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain C [A] SDF format, chain D [A] SDF format, chain E [A] SDF format, chain F [A] SDF format, chain I [B] SDF format, chain J [B] SDF format, chain K [B] SDF format, chain L [B] MOL2 format, chain C [A] MOL2 format, chain D [A] MOL2 format, chain E [A] MOL2 format, chain F [A] MOL2 format, chain I [B] MOL2 format, chain J [B] MOL2 format, chain K [B] MOL2 format, chain L [B]	A, B	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Ligand Interaction