Structural insights into conformational changes of a cyclic nucleotide-binding domain in solution from Mesorhizobium loti K1 channel

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue 15, 2011, Pages 6121-6126

  Schünkea, Sven ^a,b   Stoldta, Matthias ^a,b   Lechera, Justin ^a,b   Kaupp, U Benjamin ^c   Willbold, Dieter ^a,b  

^a FORSCHUNGSZENTRUM JÜLICH   (Germany)

^b HEINRICH HEINE UNIVERSITY   (Germany)

^c CENTER OF ADVANCED EUROPEAN STUDIES AND RESEARCH CAESAR   (Germany)

Author keywords

Apo state; Ligand removal method; NMR solution structure; Potassium channel

Indexed keywords

CYCLIC AMP; CYCLIC NUCLEOTIDE BINDING DOMAIN; NUCLEOTIDE; POTASSIUM CHANNEL; UNCLASSIFIED DRUG;

BINDING SITE; CHANNEL GATING; CONFERENCE PAPER; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; CRYSTAL STRUCTURE; GENE REARRANGEMENT; LIGAND BINDING; MESORHIZOBIUM; MESORHIZOBIUM LOTI; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN STRUCTURE;

BACTERIA (MICROORGANISMS); MESORHIZOBIUM LOTI;

EID: 79955011398     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1015890108     Document Type: Article

References (51)

1. Kaupp UB, Seifert R (2001) Molecular diversity of pacemaker ion channels. Annu Rev Physiol 63:235-257. (Pubitemid 32304318)
2. Kaupp UB, Seifert R (2002) Cyclic nucleotide-gated ion channels. Physiol Rev 82:769-824. (Pubitemid 34743338)
3. Robinson RB, Siegelbaum SA (2003) Hyperpolarization-activated cation currents: From molecules to physiological function. Annu Rev Physiol 65:453-480. (Pubitemid 38249163)
4. Cukkemane A, Seifert R, Kaupp UB (2011) Cooperative and uncooperative cyclicnucleotide- gated ion channels. Trends Biochem Sci 36:55-64.
5. Craven KB, Zagotta WN (2006) CNG and HCN channels: Two peas, one pod. Annu Rev Physiol 68:375-401.
6. Flynn GE, Black KD, Islas LD, Sankaran B, Zagotta WN (2007) Structure and rearrangements in the carboxy-terminal region of SpIH channels. Structure 15:671-682. (Pubitemid 46874078)
7. Taraska JW, Puljung MC, Olivier NB, Flynn GE, Zagotta WN (2009) Mapping the structure and conformational movements of proteins with transition metal ion FRET. Nat Methods 6:532-537.
8. Zagotta WN, et al. (2003) Structural basis for modulation and agonist specificity of HCN pacemaker channels. Nature 425:200-205. (Pubitemid 37150901)
9. Altieri SL, et al. (2008) Structural and energetic analysis of activation by a cyclic nucleotide binding domain. J Mol Biol 381:655-669.
10. Clayton GM, Altieri S, Heginbotham L, Unger VM, Morais-Cabral JH (2008) Structure of the transmembrane regions of a bacterial cyclic nucleotide-regulated channel. Proc Natl Acad Sci USA 105:1511-1515. (Pubitemid 351346545)
11. Clayton GM, Silverman WR, Heginbotham L, Morais-Cabral JH (2004) Structural basis of ligand activation in a cyclic nucleotide regulated potassium channel. Cell 119:615-627. (Pubitemid 39535750)
12. Gordon SE, ZagottaWN(1995) Localization of regions affecting an allosteric transition in cyclic nucleotide-activated channels. Neuron 14:857-864.
13. Johnson JP, Jr, ZagottaWN(2001) Rotational movement during cyclic nucleotide-gated channel opening. Nature 412:917-921.
14. Paoletti P, Young EC, Siegelbaum SA (1999) C-Linker of cyclic nucleotide-gated channels controls coupling of ligand binding to channel gating. J Gen Physiol 113:17-34.
15. Wang J, Chen S, Siegelbaum SA (2001) Regulation of hyperpolarization- activated HCN channel gating and cAMP modulation due to interactions of COOH terminus and core transmembrane regions. J Gen Physiol 118:237-250. (Pubitemid 32845960)
16. Zhou L, Siegelbaum SA (2007) Gating of HCN channels by cyclic nucleotides: Residue contacts that underlie ligand binding, selectivity, and efficacy. Structure 15:655-670. (Pubitemid 46874082)
17. Zong X, Zucker H, Hofmann F, BielM(1998) Three amino acids in the C-linker are major determinants of gating in cyclic nucleotide-gated channels. EMBO J 17:353-362. (Pubitemid 28045476)
18. Schünke S, Stoldt M, Novak K, Kaupp UB, Willbold D (2009) Solution structure of the Mesorhizobium loti K1 channel cyclic nucleotide-binding domain in complex with cAMP. EMBO Rep 10:729-735.
19. Chiu PL, et al. (2007) The structure of the prokaryotic cyclic nucleotide-modulated potassium channel MloK1 at 16 A resolution. Structure 15:1053-1064.
20. Cukkemane A, et al. (2007) Subunits act independently in a cyclic nucleotide-activated K(+) channel. EMBO Rep 8:749-755. (Pubitemid 47202454)
21. Schünke S, Lecher J, Stoldt M, Kaupp UB, Willbold D (2010) Resonance assignments of the nucleotide-free wildtype MloK1 cyclic nucleotide-binding domain. Biomol NMR Assign 4:147-150.
22. Diller TC, Madhusudan, Xuong NH, Taylor SS (2001) Molecular basis for regulatory subunit diversity in cAMP-dependent protein kinase: Crystal structure of the type II beta regulatory subunit. Structure 9:73-82. (Pubitemid 32064352)
23. Su Y, et al. (1995) Regulatory subunit of protein kinase A: Structure of deletion mutant with cAMP binding domains. Science 269:807-813.
24. Rehmann H, et al. (2003) Structure and regulation of the cAMP-binding domains of Epac2. Nat Struct Biol 10:26-32. (Pubitemid 36034173)
25. Weber IT, Steitz TA (1987) Structure of a complex of catabolite gene activator protein and cyclic AMP refined at 2.5 A resolution. J Mol Biol 198:311-326.
26. Hvidt A, Nielsen SO (1966) Hydrogen exchange in proteins. Adv Protein Chem 21:287-386.
27. Jeng MF, Dyson HJ (1995) Comparison of the hydrogen-exchange behavior of reduced and oxidized Escherichia coli thioredoxin. Biochemistry 34:611-619.
28. Taylor SS, et al. (2004) PKA: A portrait of protein kinase dynamics. Biochim Biophys Acta 1697:259-269. (Pubitemid 38326777)
29. Wagner G, Wüthrich K (1982) Amide protein exchange and surface conformation of the basic pancreatic trypsin inhibitor in solution. Studies with two-dimensional nuclear magnetic resonance. J Mol Biol 160:343-361.
30. Kay LE, Torchia DA, Bax A (1989) Backbone dynamics of proteins as studied by 15N inverse detected heteronuclear NMR spectroscopy: Application to staphylococcal nuclease. Biochemistry 28:8972-8979. (Pubitemid 19283459)
31. Yao J, Chung J, Eliezer D, Wright PE, Dyson HJ (2001) NMR structural and dynamic characterization of the acid-unfolded state of apomyoglobin provides insights into the early events in protein folding. Biochemistry 40:3561-3571. (Pubitemid 32242813)
32. Popovych N, Tzeng SR, Tonelli M, Ebright RH, Kalodimos CG (2009) Structural basis for cAMP-mediated allosteric control of the catabolite activator protein. Proc Natl Acad Sci USA 106:6927-6932.
33. Rehmann H, Wittinghofer A, Bos JL (2007) Capturing cyclic nucleotides in action: snapshots from crystallographic studies. Nat Rev Mol Cell Biol 8:63-73. (Pubitemid 46012015)
34. Rehmann H, et al. (2008) Structure of Epac2 in complex with a cyclic AMP analogue and RAP1B. Nature 455:124-127.
35. Bönigk W, et al. (2009) An atypical CNG channel activated by a single cGMP molecule controls sperm chemotaxis. Sci Signal 2:ra68.
36. Altenbach C, Kusnetzow AK, Ernst OP, Hofmann KP, Hubbell WL (2008) Highresolution distance mapping in rhodopsin reveals the pattern of helix movement due to activation. Proc Natl Acad Sci USA 105:7439-7444. (Pubitemid 351830036)
37. Fleissner MR, et al. (2009) Site-directed spin labeling of a genetically encoded unnatural amino acid. Proc Natl Acad Sci USA 106:21637-21642.
38. + channel in complex with cAMP. Biomol NMR Assign 1:179-181.
39. Delaglio F, et al. (1995) NMRPipe: A multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 6:277-293.
40. Keller R (2004) The Computer Aided Resonance Assignment Tutorial (Cantina, Zurich).
41. Güntert P, Mumenthaler C, Wüthrich K (1997) Torsion angle dynamics for NMR structure calculation with the new program DYANA. J Mol Biol 273:283-298. (Pubitemid 27460230)
42. Herrmann T, Güntert P, Wüthrich K (2002) Protein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS. J Biomol NMR 24:171-189. (Pubitemid 36113646)
43. Herrmann T, Güntert P, Wüthrich K (2002) Protein NMR structure determination with automated NOE assignment using the new software CANDID and the torsion angle dynamics algorithm DYANA. J Mol Biol 319:209-227. (Pubitemid 34729497)
44. Cornilescu G, Delaglio F, Bax A (1999) Protein backbone angle restraints from searching a database for chemical shift and sequence homology. J Biomol NMR 13:289-302. (Pubitemid 29143535)
45. Shen Y, Delaglio F, Cornilescu G, Bax A (2009) TALOS+: A hybrid method for predicting protein backbone torsion angles from NMR chemical shifts. J Biomol NMR 44:213-223.
46. Koradi R, Billeter M, Wüthrich K (1996) MOLMOL: A program for display and analysis of macromolecular structures. J Mol Graphics 14:51-32.
47. DeLano W (2002) The PyMOL Molecular Graphics System (DeLano Scientific, San Carlos, CA).
48. Davis IW, et al. (2007) MolProbity: All-atom contacts and structure validation for proteins and nucleic acids. Nucleic Acids Res 35:W375-W383.
49. Laskowski RA, MacArthurMW, Moss DS, Thornton JM (1993)PROCHECK: A program to check the stereochemical quality of protein structures. J Appl Crystallogr 26:283-291.
50. Dosset P, Hus JC, Blackledge M, Marion D (2000) Efficient analysis of macromolecular rotational diffusion from heteronuclear relaxation data. J Biomol NMR 16:23-28. (Pubitemid 30114721)
51. Schanda P, Brutscher B (2005) Very fast two-dimensional NMR spectroscopy for real-time investigation of dynamic events in proteins on the time scale of seconds. J Am Chem Soc 127:8014-8015. (Pubitemid 40799646)