spacer
spacer

PDBsum entry 1prw

Go to PDB code: 
protein metals links
Metal binding protein PDB id
1prw

 

 

 

 

Loading ...

 
JSmol PyMol  
Contents
Protein chain
149 a.a. *
Metals
_CA ×4
Waters ×172
* Residue conservation analysis
PDB id:
1prw
Name: Metal binding protein
Title: Crystal structure of bovine brain ca++ calmodulin in a compact form
Structure: Calmodulin. Chain: a
Source: Bos taurus. Cattle. Organism_taxid: 9913
Resolution:
1.70Å     R-factor:   0.186     R-free:   0.230
Authors: J.L.Fallon,F.A.Quiocho
Key ref:
J.L.Fallon and F.A.Quiocho (2003). A closed compact structure of native Ca(2+)-calmodulin. Structure, 11, 1303-1307. PubMed id: 14527397 DOI: 10.1016/j.str.2003.09.004
Date:
20-Jun-03     Release date:   10-Oct-03    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P62157  (CALM_BOVIN) -  Calmodulin from Bos taurus
Seq:
Struc:
149 a.a.
148 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 

 
DOI no: 10.1016/j.str.2003.09.004 Structure 11:1303-1307 (2003)
PubMed id: 14527397  
 
 
A closed compact structure of native Ca(2+)-calmodulin.
J.L.Fallon, F.A.Quiocho.
 
  ABSTRACT  
 
Calmodulin has been a subject of intense scrutiny since its discovery because of its unusual properties in regulating the functions of about 100 diverse target enzymes and structural proteins. The original and to date only crystal conformation of native eukaryotic Ca(2+)-calmodulin (Ca(2+)-CaM) is a very extended molecule with two widely separated globular domains linked by an exposed long helix. Here we report the 1.7 A X-ray structure of a new native Ca(2+)-CaM that is in a compact ellipsoidal conformation and shows a sharp bend in the linker helix and a more contracted N-terminal domain. This conformation may offer advantages for recognition of kinase-type calmodulin targets or small organic molecule drugs.
 
  Selected figure(s)  
 
Figure 1.
Figure 1. Unbound Compact Structure of Native Ca^2+-CaM(A) Stereoview of the electron density (2Fo-Fc at 1 s level) for the N-domain of Ca^2+-CaM, showing the N-terminal acetoalanine (n-ACE) and residues 2, 3, and 4 as a ball and stick model. Carbon atoms are green, oxygens are red, and nitrogens are blue.(B) Stereoview of the ribbon diagram of Ca^2+-CaM showing interdomain contacts. The CaM backbone is purple, loops are brown, and calciums are blue spheres. The sidechains that make contact (including 16 hydrogen bonds (<3.4 Å) and 24 van der Waals interactions (<4 Å)) between domains are shown (atom colors as Figure 1A, with sulfur yellow). Helices are numbered from I-VIII.
 
  The above figure is reprinted by permission from Cell Press: Structure (2003, 11, 1303-1307) copyright 2003.  
  Figure was selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
21134641 F.Findeisen, and D.L.Minor (2010).
Structural basis for the differential effects of CaBP1 and calmodulin on Ca(V)1.2 calcium-dependent inactivation.
  Structure, 18, 1617-1631.
PDB codes: 3ox5 3ox6
20401735 J.L.Kitevski-Leblanc, F.Evanics, and R.Scott Prosser (2010).
Approaches to the assignment of (19)F resonances from 3-fluorophenylalanine labeled calmodulin using solution state NMR.
  J Biomol NMR, 47, 113-123.  
20048169 L.W.Xiong, Q.K.Kleerekoper, X.Wang, and J.A.Putkey (2010).
Intra- and interdomain effects due to mutation of calcium-binding sites in calmodulin.
  J Biol Chem, 285, 8094-8103.  
19577574 D.Homouz, H.Sanabria, M.N.Waxham, and M.S.Cheung (2009).
Modulation of calmodulin plasticity by the effect of macromolecular crowding.
  J Mol Biol, 391, 933-943.  
19653199 F.Krauth, C.H.Ihling, H.H.Rüttinger, and A.Sinz (2009).
Heterobifunctional isotope-labeled amine-reactive photo-cross-linker for structural investigation of proteins by matrix-assisted laser desorption/ionization tandem time-of-flight and electrospray ionization LTQ-Orbitrap mass spectrometry.
  Rapid Commun Mass Spectrom, 23, 2811-2818.  
19717559 K.Griessmeier, H.Cuny, K.Rötzer, O.Griesbeck, H.Harz, M.Biel, and C.Wahl-Schott (2009).
Calmodulin is a functional regulator of Cav1.4 L-type Ca2+ channels.
  J Biol Chem, 284, 29809-29816.  
18175311 E.Laine, J.D.Yoneda, A.Blondel, and T.E.Malliavin (2008).
The conformational plasticity of calmodulin upon calcium complexation gives a model of its interaction with the oedema factor of Bacillus anthracis.
  Proteins, 71, 1813-1829.  
18669651 M.I.Stefan, S.J.Edelstein, and N.Le Novère (2008).
An allosteric model of calmodulin explains differential activation of PP2B and CaMKII.
  Proc Natl Acad Sci U S A, 105, 10768-10773.  
18326667 M.Kapustina, G.E.Weinreb, N.Costigliola, Z.Rajfur, K.Jacobson, and T.C.Elston (2008).
Mechanical and biochemical modeling of cortical oscillations in spreading cells.
  Biophys J, 94, 4605-4620.  
18583346 Q.Guo, J.E.Jureller, J.T.Warren, E.Solomaha, J.Florián, and W.J.Tang (2008).
Protein-protein docking and analysis reveal that two homologous bacterial adenylyl cyclase toxins interact with calmodulin differently.
  J Biol Chem, 283, 23836-23845.  
17285296 A.Isvoran, C.T.Craescu, and E.Alexov (2007).
Electrostatic control of the overall shape of calmodulin: numerical calculations.
  Eur Biophys J, 36, 225-237.  
17180551 C.Eichmüller, and N.R.Skrynnikov (2007).
Observation of microsecond time-scale protein dynamics in the presence of Ln3+ ions: application to the N-terminal domain of cardiac troponin C.
  J Biomol NMR, 37, 79-95.  
18075575 K.Henzler-Wildman, and D.Kern (2007).
Dynamic personalities of proteins.
  Nature, 450, 964-972.  
17173306 L.Settimo, S.Donnini, A.H.Juffer, R.W.Woody, and O.Marin (2007).
Conformational changes upon calcium binding and phosphorylation in a synthetic fragment of calmodulin.
  Biopolymers, 88, 373-385.  
17567747 N.Juranić, E.Atanasova, J.H.Streiff, S.Macura, and F.G.Prendergast (2007).
Solvent-induced differentiation of protein backbone hydrogen bonds in calmodulin.
  Protein Sci, 16, 1329-1337.  
17473011 T.M.Lakowski, G.M.Lee, M.Okon, R.E.Reid, and L.P.McIntosh (2007).
Calcium-induced folding of a fragment of calmodulin composed of EF-hands 2 and 3.
  Protein Sci, 16, 1119-1132.
PDB code: 2hf5
17525461 T.S.Priddy, E.S.Price, C.K.Johnson, and G.M.Carlson (2007).
Single molecule analyses of the conformational substates of calmodulin bound to the phosphorylase kinase complex.
  Protein Sci, 16, 1017-1023.  
16568447 A.Ganoth, E.Nachliel, R.Friedman, and M.Gutman (2006).
Molecular dynamics study of a calmodulin-like protein with an IQ peptide: spontaneous refolding of the protein around the peptide.
  Proteins, 64, 133-146.  
16844751 A.Ganoth, R.Friedman, E.Nachliel, and M.Gutman (2006).
A molecular dynamics study and free energy analysis of complexes between the Mlc1p protein and two IQ motif peptides.
  Biophys J, 91, 2436-2450.  
17128963 C.K.Johnson (2006).
Calmodulin, conformational states, and calcium signaling. A single-molecule perspective.
  Biochemistry, 45, 14233-14246.  
16533845 E.Project, R.Friedman, E.Nachliel, and M.Gutman (2006).
A molecular dynamics study of the effect of Ca2+ removal on calmodulin structure.
  Biophys J, 90, 3842-3850.  
16877516 J.H.Streiff, T.W.Allen, E.Atanasova, N.Juranic, S.Macura, A.R.Penheiter, and K.A.Jones (2006).
Prediction of volatile anesthetic binding sites in proteins.
  Biophys J, 91, 3405-3414.  
16721661 K.Chen, J.Ruan, and L.A.Kurgan (2006).
Prediction of three dimensional structure of calmodulin.
  Protein J, 25, 57-70.  
17054984 N.Wu, S.M.Hanson, D.J.Francis, S.A.Vishnivetskiy, M.Thibonnier, C.S.Klug, M.Shoham, and V.V.Gurevich (2006).
Arrestin binding to calmodulin: a direct interaction between two ubiquitous signaling proteins.
  J Mol Biol, 364, 955-963.  
15752366 A.G.Cook, L.N.Johnson, and J.M.McDonnell (2005).
Structural characterization of Ca2+/CaM in complex with the phosphorylase kinase PhK5 peptide.
  FEBS J, 272, 1511-1522.  
15649896 A.J.Oakley, K.V.Loscha, P.M.Schaeffer, E.Liepinsh, G.Pintacuda, M.C.Wilce, G.Otting, and N.E.Dixon (2005).
Crystal and solution structures of the helicase-binding domain of Escherichia coli primase.
  J Biol Chem, 280, 11495-11504.
PDB code: 1t3w
16193483 G.Fiorin, R.R.Biekofsky, A.Pastore, and P.Carloni (2005).
Unwinding the helical linker of calcium-loaded calmodulin: a molecular dynamics study.
  Proteins, 61, 829-839.  
15819893 G.Rabah, R.Popescu, J.A.Cox, Y.Engelborghs, and C.T.Craescu (2005).
Solution structure and internal dynamics of NSCP, a compact calcium-binding protein.
  FEBS J, 272, 2022-2036.
PDB code: 1q80
15596444 I.Horváth, V.Harmat, A.Perczel, V.Pálfi, L.Nyitray, A.Nagy, E.Hlavanda, G.Náray-Szabó, and J.Ovádi (2005).
The structure of the complex of calmodulin with KAR-2: a novel mode of binding explains the unique pharmacology of the drug.
  J Biol Chem, 280, 8266-8274.
PDB code: 1xa5
16338416 J.L.Fallon, D.B.Halling, S.L.Hamilton, and F.A.Quiocho (2005).
Structure of calmodulin bound to the hydrophobic IQ domain of the cardiac Ca(v)1.2 calcium channel.
  Structure, 13, 1881-1886.
PDB codes: 2f3y 2f3z
15944696 J.Ménétrey, A.Bahloul, A.L.Wells, C.M.Yengo, C.A.Morris, H.L.Sweeney, and A.Houdusse (2005).
The structure of the myosin VI motor reveals the mechanism of directionality reversal.
  Nature, 435, 779-785.
PDB codes: 2bkh 2bki
15988725 S.J.Watt, A.Oakley, M.M.Sheil, and J.L.Beck (2005).
Comparison of negative and positive ion electrospray ionization mass spectra of calmodulin and its complex with trifluoperazine.
  Rapid Commun Mass Spectrom, 19, 2123-2130.  
15719022 Y.Shen, N.L.Zhukovskaya, Q.Guo, J.Florián, and W.J.Tang (2005).
Calcium-independent calmodulin binding and two-metal-ion catalytic mechanism of anthrax edema factor.
  EMBO J, 24, 929-941.
PDB codes: 1xfu 1xfv 1xfw 1xfx 1xfy 1xfz 1y0v
15155727 A.M.Weljie, and H.J.Vogel (2004).
Unexpected structure of the Ca2+-regulatory region from soybean calcium-dependent protein kinase-alpha.
  J Biol Chem, 279, 35494-35502.
PDB code: 1s6i
15298887 C.M.Shepherd, and H.J.Vogel (2004).
A molecular dynamics study of Ca(2+)-calmodulin: evidence of interdomain coupling and structural collapse on the nanosecond timescale.
  Biophys J, 87, 780-791.  
15100408 I.Bertini, C.Del Bianco, I.Gelis, N.Katsaros, C.Luchinat, G.Parigi, M.Peana, A.Provenzani, and M.A.Zoroddu (2004).
Experimentally exploring the conformational space sampled by domain reorientation in calmodulin.
  Proc Natl Acad Sci U S A, 101, 6841-6846.
PDB code: 1sw8
15130477 M.A.Schumacher, M.Crum, and M.C.Miller (2004).
Crystal structures of apocalmodulin and an apocalmodulin/SK potassium channel gating domain complex.
  Structure, 12, 849-860.
PDB codes: 1qx5 1qx7
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.

 

spacer

spacer