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PDBsum entry 2zbd

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protein ligands metals links
Hydrolase PDB id
2zbd
Jmol PyMol
Contents
Protein chain
995 a.a. *
Ligands
ALF
ADP
PC1 ×2
Metals
_CA ×2
_MG ×2
Waters ×98
* Residue conservation analysis
PDB id:
2zbd
Name: Hydrolase
Title: Crystal structure of the sr calcium pump with bound aluminium fluoride, adp and calcium
Structure: Sarcoplasmic/endoplasmic reticulum calcium atpase 1. Chain: a. Synonym: calcium pump 1, serca1, sr ca(2+)-atpase 1, calcium-transporting atpase sarcoplasmic reticulum type, fast twitch skeletal muscle isoform, endoplasmic reticulum class 1/2 ca(2+) atpase. Ec: 3.6.3.8
Source: Oryctolagus cuniculus. Rabbit. Organism_taxid: 9986. Tissue: skeletal muscle (white)
Resolution:
2.40Å     R-factor:   0.248     R-free:   0.271
Authors: C.Toyoshima,H.Nomura,T.Tsuda,H.Ogawa,Y.Norimatsu
Key ref:
C.Toyoshima et al. (2004). Lumenal gating mechanism revealed in calcium pump crystal structures with phosphate analogues. Nature, 432, 361-368. PubMed id: 15448704 DOI: 10.1038/nature02981
Date:
20-Oct-07     Release date:   20-Nov-07    
Supersedes: 2z9r
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P04191  (AT2A1_RABIT) -  Sarcoplasmic/endoplasmic reticulum calcium ATPase 1
Seq:
Struc:
 
Seq:
Struc:
1001 a.a.
994 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: E.C.3.6.3.8  - Calcium-transporting ATPase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: ATP + H2O + Ca2+(Side 1) = ADP + phosphate + Ca2+(Side 2)
ATP
+ H(2)O
+ Ca(2+)(Side 1)
=
ADP
Bound ligand (Het Group name = ADP)
corresponds exactly
+ phosphate
+ Ca(2+)(Side 2)
      Cofactor: Mg(2+)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     membrane   6 terms 
  Biological process     transport   6 terms 
  Biochemical function     nucleotide binding     6 terms  

 

 
    reference    
 
 
DOI no: 10.1038/nature02981 Nature 432:361-368 (2004)
PubMed id: 15448704  
 
 
Lumenal gating mechanism revealed in calcium pump crystal structures with phosphate analogues.
C.Toyoshima, H.Nomura, T.Tsuda.
 
  ABSTRACT  
 
P-type ion transporting ATPases are ATP-powered ion pumps that establish ion concentration gradients across biological membranes. Transfer of bound cations to the lumenal or extracellular side occurs while the ATPase is phosphorylated. Here we report at 2.3 A resolution the structure of the calcium-ATPase of skeletal muscle sarcoplasmic reticulum, a representative P-type ATPase that is crystallized in the absence of Ca2+ but in the presence of magnesium fluoride, a stable phosphate analogue. This and other crystal structures determined previously provide atomic models for all four principal states in the reaction cycle. These structures show that the three cytoplasmic domains rearrange to move six out of ten transmembrane helices, thereby changing the affinity of the Ca2+-binding sites and the gating of the ion pathway. Release of ADP triggers the opening of the lumenal gate and release of phosphate its closure, effected mainly through movement of the A-domain, the actuator of transmembrane gates.
 
  Selected figure(s)  
 
Figure 5.
Figure 5: Details of the phosphorylation site in E2 [glyph.gif]MgF[4]^2-. In the enlarged view (b), the atomic model of aspartylphosphate taken unchanged from a related protein CheY (PDB accession code 1QMP)29 is incorporated. The blue net in a shows an omit annealed Fo -Fc map (at 5 ; temperature factor also refined) at 2.3 resolution. Small spheres represent water molecules (red) and Mg2+ (green). MgF[4]^2- is shown in ball-and-stick representation. Large yellow arrow indicates the expected water attack to the aspartylphosphate (P-D351). Conserved sequence motifs are shown in a. Broken lines in pink indicate likely hydrogen bonds, and those in light green coordinations of Mg2+.
Figure 6.
Figure 6: A cartoon depicting the structural changes of the Ca^2+-ATPase during the reaction cycle, based on the crystal structures in five different states.
 
  The above figures are reprinted by permission from Macmillan Publishers Ltd: Nature (2004, 432, 361-368) copyright 2004.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
21239683 C.Toyoshima, S.Yonekura, J.Tsueda, and S.Iwasawa (2011).
Trinitrophenyl derivatives bind differently from parent adenine nucleotides to Ca2+-ATPase in the absence of Ca2+.
  Proc Natl Acad Sci U S A, 108, 1833-1838.
PDB codes: 3ar2 3ar3 3ar4 3ar5 3ar6 3ar7 3ar8 3ar9
21179061 J.P.Morth, B.P.Pedersen, M.J.Buch-Pedersen, J.P.Andersen, B.Vilsen, M.G.Palmgren, and P.Nissen (2011).
A structural overview of the plasma membrane Na+,K+-ATPase and H+-ATPase ion pumps.
  Nat Rev Mol Cell Biol, 12, 60-70.  
20938980 K.Illergård, A.Kauko, and A.Elofsson (2011).
Why are polar residues within the membrane core evolutionary conserved?
  Proteins, 79, 79-91.  
21351879 M.G.Palmgren, and P.Nissen (2011).
P-type ATPases.
  Annu Rev Biophys, 40, 243-266.  
21716286 P.Gourdon, X.Y.Liu, T.Skjørringe, J.P.Morth, L.B.Møller, B.P.Pedersen, and P.Nissen (2011).
Crystal structure of a copper-transporting PIB-type ATPase.
  Nature, 475, 59-64.
PDB code: 3rfu
21187401 S.Mukhopadhyay, and A.D.Linstedt (2011).
Identification of a gain-of-function mutation in a Golgi P-type ATPase that enhances Mn2+ efflux and protects against toxicity.
  Proc Natl Acad Sci U S A, 108, 858-863.  
20118641 H.Suzuki, K.Yamasaki, T.Daiho, and S.Danko (2010).
[Mechanism of ca(2+) pump as revealed by mutations, development of stable analogs of phosphorylated intermediates, and their structural analyses].
  Yakugaku Zasshi, 130, 179-189.  
20809990 J.V.Møller, C.Olesen, A.M.Winther, and P.Nissen (2010).
The sarcoplasmic Ca2+-ATPase: design of a perfect chemi-osmotic pump.
  Q Rev Biophys, 43, 501-566.  
20118644 K.Abe, K.Tani, T.Nishizawa, and Y.Fujiyoshi (2010).
[Novel ratchet mechanism of gastric H(+), K(+)-ATPase revealed by electron crystallography of two-dimensional crystals].
  Yakugaku Zasshi, 130, 205-210.  
20472546 K.Kasahara, K.Kinoshita, and T.Takagi (2010).
Ligand-binding site prediction of proteins based on known fragment-fragment interactions.
  Bioinformatics, 26, 1493-1499.  
19826804 K.McLuskey, A.W.Roszak, Y.Zhu, and N.W.Isaacs (2010).
Crystal structures of all-alpha type membrane proteins.
  Eur Biophys J, 39, 723-755.  
20634056 M.Bublitz, H.Poulsen, J.P.Morth, and P.Nissen (2010).
In and out of the cation pumps: P-type ATPase structure revisited.
  Curr Opin Struct Biol, 20, 431-439.  
19640897 M.L.Gumz, I.J.Lynch, M.M.Greenlee, B.D.Cain, and C.S.Wingo (2010).
The renal H+-K+-ATPases: physiology, regulation, and structure.
  Am J Physiol Renal Physiol, 298, F12-F21.  
  20548052 N.Vedovato, and D.C.Gadsby (2010).
The two C-terminal tyrosines stabilize occluded Na/K pump conformations containing Na or K ions.
  J Gen Physiol, 136, 63-82.  
21098671 Y.Sugita, M.Ikeguchi, and C.Toyoshima (2010).
Relationship between Ca2+-affinity and shielding of bulk water in the Ca2+-pump from molecular dynamics simulations.
  Proc Natl Acad Sci U S A, 107, 21465-21469.  
19824702 A.K.Boal, and A.C.Rosenzweig (2009).
Structural biology of copper trafficking.
  Chem Rev, 109, 4760-4779.  
19278994 A.N.Holdensen, and J.P.Andersen (2009).
The Length of the A-M3 Linker Is a Crucial Determinant of the Rate of the Ca2+ Transport Cycle of Sarcoplasmic Reticulum Ca2+-ATPase.
  J Biol Chem, 284, 12258-12265.  
19413981 A.Pilotelle-Bunner, F.Cornelius, P.Sebban, P.W.Kuchel, and R.J.Clarke (2009).
Mechanism of Mg2+ binding in the Na+,K+-ATPase.
  Biophys J, 96, 3753-3761.  
19339978 D.C.Gadsby (2009).
Ion channels versus ion pumps: the principal difference, in principle.
  Nat Rev Mol Cell Biol, 10, 344-352.  
18986966 D.C.Gadsby, A.Takeuchi, P.Artigas, and N.Reyes (2009).
Review. Peering into an ATPase ion pump with single-channel recordings.
  Philos Trans R Soc Lond B Biol Sci, 364, 229-238.  
19666591 H.Ogawa, T.Shinoda, F.Cornelius, and C.Toyoshima (2009).
Crystal structure of the sodium-potassium pump (Na+,K+-ATPase) with bound potassium and ouabain.
  Proc Natl Acad Sci U S A, 106, 13742-13747.
PDB code: 3a3y
18324411 J.J.De Pont, H.G.Swarts, A.Karawajczyk, G.Schaftenaar, P.H.Willems, and J.B.Koenderink (2009).
The non-gastric H,K-ATPase as a tool to study the ouabain-binding site in Na,K-ATPase.
  Pflugers Arch, 457, 623-634.  
19798434 J.Jeon, J.S.Yang, and S.Kim (2009).
Integration of evolutionary features for the identification of functionally important residues in major facilitator superfamily transporters.
  PLoS Comput Biol, 5, e1000522.  
18957371 J.P.Morth, H.Poulsen, M.S.Toustrup-Jensen, V.R.Schack, J.Egebjerg, J.P.Andersen, B.Vilsen, and P.Nissen (2009).
The structure of the Na+,K+-ATPase and mapping of isoform differences and disease-related mutations.
  Philos Trans R Soc Lond B Biol Sci, 364, 217-227.  
19602147 J.Scherer, and D.H.Nies (2009).
CzcP is a novel efflux system contributing to transition metal resistance in Cupriavidus metallidurans CH34.
  Mol Microbiol, 73, 601-621.  
19387495 K.Abe, K.Tani, T.Nishizawa, and Y.Fujiyoshi (2009).
Inter-subunit interaction of gastric H+,K+-ATPase prevents reverse reaction of the transport cycle.
  EMBO J, 28, 1637-1643.
PDB code: 3ixz
19491099 K.L.Dürr, K.Abe, N.N.Tavraz, and T.Friedrich (2009).
E2P state stabilization by the N-terminal tail of the H,K-ATPase beta-subunit is critical for efficient proton pumping under in vivo conditions.
  J Biol Chem, 284, 20147-20154.  
18458946 M.J.Buch-Pedersen, B.P.Pedersen, B.Veierskov, P.Nissen, and M.G.Palmgren (2009).
Protons and how they are transported by proton pumps.
  Pflugers Arch, 457, 573-579.  
19751681 M.Kubala, L.Grycova, Z.Lansky, P.Sklenovsky, M.Janovska, M.Otyepka, and J.Teisinger (2009).
Changes in electrostatic surface potential of Na+/K+-ATPase cytoplasmic headpiece induced by cytoplasmic ligand(s) binding.
  Biophys J, 97, 1756-1764.  
19383486 M.Stolz, E.Lewitzki, R.Bergbauer, W.Mäntele, E.Grell, and A.Barth (2009).
Structural changes in the catalytic cycle of the Na+,K+-ATPase studied by infrared spectroscopy.
  Biophys J, 96, 3433-3442.  
19621894 R.D.Peluffo, R.M.González-Lebrero, S.B.Kaufman, S.Kortagere, B.Orban, R.C.Rossi, and J.R.Berlin (2009).
Quaternary benzyltriethylammonium ion binding to the Na,K-ATPase: a tool to investigate extracellular K+ binding reactions.
  Biochemistry, 48, 8105-8119.  
19561071 S.Danko, T.Daiho, K.Yamasaki, X.Liu, and H.Suzuki (2009).
Formation of the stable structural analog of ADP-sensitive phosphoenzyme of Ca2+-ATPase with occluded Ca2+ by beryllium fluoride: structural changes during phosphorylation and isomerization.
  J Biol Chem, 284, 22722-22735.  
19458722 T.Shinoda, H.Ogawa, F.Cornelius, and C.Toyoshima (2009).
Crystal structure of the sodium-potassium pump at 2.4 A resolution.
  Nature, 459, 446-450.
PDB code: 2zxe
19478797 T.Tsuda, and C.Toyoshima (2009).
Nucleotide recognition by CopA, a Cu+-transporting P-type ATPase.
  EMBO J, 28, 1782-1791.
PDB codes: 3a1c 3a1d 3a1e
19628462 X.Liu, T.Daiho, K.Yamasaki, G.Wang, S.Danko, and H.Suzuki (2009).
Roles of interaction between actuator and nucleotide binding domains of sarco(endo)plasmic reticulum Ca(2+)-ATPase as revealed by single and swap mutational analyses of serine 186 and glutamate 439.
  J Biol Chem, 284, 25190-25198.  
19242958 Y.Huang, H.Li, and Y.Bu (2009).
Molecular dynamics simulation exploration of cooperative migration mechanism of calcium ions in sarcoplasmic reticulum Ca2+-ATPase.
  J Comput Chem, 30, 2136-2145.  
18356161 A.Marchand, A.M.Winther, P.J.Holm, C.Olesen, C.Montigny, B.Arnou, P.Champeil, J.D.Clausen, B.Vilsen, J.P.Andersen, P.Nissen, C.Jaxel, J.V.Møller, and M.le Maire (2008).
Crystal structure of D351A and P312A mutant forms of the mammalian sarcoplasmic reticulum Ca(2+) -ATPase reveals key events in phosphorylation and Ca(2+) release.
  J Biol Chem, 283, 14867-14882.  
18849964 A.Takeuchi, N.Reyes, P.Artigas, and D.C.Gadsby (2008).
The ion pathway through the opened Na(+),K(+)-ATPase pump.
  Nature, 456, 413-416.  
18547529 C.C.Wu, W.J.Rice, and D.L.Stokes (2008).
Structure of a copper pump suggests a regulatory role for its metal-binding domain.
  Structure, 16, 976-985.
PDB code: 2voy
18056991 C.Xu, A.M.Prasad, G.Inesi, and C.Toyoshima (2008).
Critical role of val-304 in conformational transitions that allow Ca2+ occlusion and phosphoenzyme turnover in the Ca2+ transport ATPase.
  J Biol Chem, 283, 3297-3304.  
18321962 D.J.Müller, N.Wu, and K.Palczewski (2008).
Vertebrate membrane proteins: structure, function, and insights from biophysical approaches.
  Pharmacol Rev, 60, 43-78.  
17993458 G.Inesi, D.Lewis, C.Toyoshima, A.Hirata, and L.de Meis (2008).
Conformational fluctuations of the Ca2+-ATPase in the native membrane environment. Effects of pH, temperature, catalytic substrates, and thapsigargin.
  J Biol Chem, 283, 1189-1196.  
18213437 H.Eguchi, M.Morii, Y.Takahashi, H.Sakai, M.Nakano, H.Ochiai, A.Shirahata, Y.Hara, M.Kawamura, and K.Takeda (2008).
Functional consequences of various leucine mutations in the M3/M4 loop of the Na+,K +-ATPase alpha-Subunit.
  J Membr Biol, 221, 133-140.  
17890386 J.Andersson, K.Hauser, E.L.Karjalainen, and A.Barth (2008).
Protonation and hydrogen bonding of Ca2+ site residues in the E2P phosphoenzyme intermediate of sarcoplasmic reticulum Ca2+-ATPase studied by a combination of infrared spectroscopy and electrostatic calculations.
  Biophys J, 94, 600-611.  
18930923 J.D.Clausen, D.B.McIntosh, D.G.Woolley, and J.P.Andersen (2008).
Critical Interaction of Actuator Domain Residues Arginine 174, Isoleucine 188, and Lysine 205 with Modulatory Nucleotide in Sarcoplasmic Reticulum Ca2+-ATPase.
  J Biol Chem, 283, 35703-35714.  
18331637 K.Manikandan, D.Pal, S.Ramakumar, N.E.Brener, S.S.Iyengar, and G.Seetharaman (2008).
Functionally important segments in proteins dissected using Gene Ontology and geometric clustering of peptide fragments.
  Genome Biol, 9, R52.  
18728008 K.Yamasaki, G.Wang, T.Daiho, S.Danko, and H.Suzuki (2008).
Roles of Tyr122-hydrophobic cluster and K+ binding in Ca2+ -releasing process of ADP-insensitive phosphoenzyme of sarcoplasmic reticulum Ca2+ -ATPase.
  J Biol Chem, 283, 29144-29155.  
18184580 M.Andersson, J.Vincent, D.van der Spoel, J.Davidsson, and R.Neutze (2008).
A proposed time-resolved X-ray scattering approach to track local and global conformational changes in membrane transport proteins.
  Structure, 16, 21-28.  
18055532 M.Esmann, N.U.Fedosova, and D.Marsh (2008).
Osmotic stress and viscous retardation of the Na,K-ATPase ion pump.
  Biophys J, 94, 2767-2776.  
18403373 M.Morii, M.Yamauchi, T.Ichikawa, T.Fujii, Y.Takahashi, S.Asano, N.Takeguchi, and H.Sakai (2008).
Involvement of the H3O+-Lys-164 -Gln-161-Glu-345 charge transfer pathway in proton transport of gastric H+,K+-ATPase.
  J Biol Chem, 283, 16876-16884.  
18081313 N.J.Traaseth, K.N.Ha, R.Verardi, L.Shi, J.J.Buffy, L.R.Masterson, and G.Veglia (2008).
Structural and dynamic basis of phospholamban and sarcolipin inhibition of Ca(2+)-ATPase.
  Biochemistry, 47, 3.  
18693246 O.Capendeguy, J.Iwaszkiewicz, O.Michielin, and J.D.Horisberger (2008).
The Fourth Extracellular Loop of the {alpha} Subunit of Na,K-ATPase: FUNCTIONAL EVIDENCE FOR CLOSE PROXIMITY WITH THE SECOND EXTRACELLULAR LOOP.
  J Biol Chem, 283, 27850-27858.  
18567633 R.J.Law, K.Munson, G.Sachs, and F.C.Lightstone (2008).
An ion gating mechanism of gastric H,K-ATPase based on molecular dynamics simulations.
  Biophys J, 95, 2739-2749.  
18669634 V.R.Schack, J.P.Morth, M.S.Toustrup-Jensen, A.N.Anthonisen, P.Nissen, J.P.Andersen, and B.Vilsen (2008).
Identification and function of a cytoplasmic k+ site of the na+, k+-ATPase.
  J Biol Chem, 283, 27982-27990.  
18539598 Y.A.Mahmmoud (2008).
Capsaicin stimulates uncoupled ATP hydrolysis by the sarcoplasmic reticulum calcium pump.
  J Biol Chem, 283, 21418-21426.  
18230728 Y.A.Mahmmoud (2008).
Capsazepine, a synthetic vanilloid that converts the Na,K-ATPase to Na-ATPase.
  Proc Natl Acad Sci U S A, 105, 1757-1761.  
17579561 A.Elofsson, and G.von Heijne (2007).
Membrane protein structure: prediction versus reality.
  Annu Rev Biochem, 76, 125-140.  
17553789 A.P.Einholm, J.P.Andersen, and B.Vilsen (2007).
Importance of Leu99 in transmembrane segment M1 of the Na+, K+ -ATPase in the binding and occlusion of K+.
  J Biol Chem, 282, 23854-23866.  
18058007 A.P.Einholm, J.P.Andersen, and B.Vilsen (2007).
Roles of transmembrane segment M1 of Na(+),K (+)-ATPase and Ca (2+)-ATPase, the gatekeeper and the pivot.
  J Bioenerg Biomembr, 39, 357-366.  
17460695 C.Colina, J.J.Rosenthal, J.A.DeGiorgis, D.Srikumar, N.Iruku, and M.Holmgren (2007).
Structural basis of Na(+)/K(+)-ATPase adaptation to marine environments.
  Nat Struct Mol Biol, 14, 427-431.  
18075584 C.Olesen, M.Picard, A.M.Winther, C.Gyrup, J.P.Morth, C.Oxvig, J.V.Møller, and P.Nissen (2007).
The structural basis of calcium transport by the calcium pump.
  Nature, 450, 1036-1042.
PDB codes: 3b9b 3b9r 3ba6
18077416 C.Toyoshima, Y.Norimatsu, S.Iwasawa, T.Tsuda, and H.Ogawa (2007).
How processing of aspartylphosphate is coupled to lumenal gating of the ion pathway in the calcium pump.
  Proc Natl Acad Sci U S A, 104, 19831-19836.
PDB codes: 2zbe 2zbf 2zbg
18075569 D.C.Gadsby (2007).
Structural biology: ion pumps made crystal clear.
  Nature, 450, 957-959.  
17521566 D.L.Minor (2007).
The neurobiologist's guide to structural biology: a primer on why macromolecular structure matters and how to evaluate structural data.
  Neuron, 54, 511-533.  
17616528 E.Hughes, J.C.Clayton, A.Kitmitto, M.Esmann, and D.A.Middleton (2007).
Solid-state NMR and functional measurements indicate that the conserved tyrosine residues of sarcolipin are involved directly in the inhibition of SERCA1.
  J Biol Chem, 282, 26603-26613.  
17904096 E.L.Karjalainen, K.Hauser, and A.Barth (2007).
Proton paths in the sarcoplasmic reticulum Ca(2+) -ATPase.
  Biochim Biophys Acta, 1767, 1310-1318.  
17573037 G.Guerra, V.V.Petrov, K.E.Allen, M.Miranda, J.P.Pardo, and C.W.Slayman (2007).
Role of transmembrane segment M8 in the biogenesis and function of yeast plasma-membrane H(+)-ATPase.
  Biochim Biophys Acta, 1768, 2383-2392.  
17504757 J.D.Clausen, D.B.McIntosh, A.N.Anthonisen, D.G.Woolley, B.Vilsen, and J.P.Andersen (2007).
ATP-binding modes and functionally important interdomain bonds of sarcoplasmic reticulum Ca2+-ATPase revealed by mutation of glycine 438, glutamate 439, and arginine 678.
  J Biol Chem, 282, 20686-20697.  
  18769504 J.Fonseca, S.Kaya, S.Guennoun, and R.Rakowski (2007).
Temporal Analysis of Valence & Electrostatics in Ion-Motive Sodium Pump.
  J Comput Electron, 6, 381-385.  
17219055 J.M.Argüello, E.Eren, and M.González-Guerrero (2007).
The structure and function of heavy metal transport P1B-ATPases.
  Biometals, 20, 233-248.  
18075585 J.P.Morth, B.P.Pedersen, M.S.Toustrup-Jensen, T.L.Sørensen, J.Petersen, J.P.Andersen, B.Vilsen, and P.Nissen (2007).
Crystal structure of the sodium-potassium pump.
  Nature, 450, 1043-1049.
PDB codes: 3b8e 3kdp
17938423 K.Hauser, and A.Barth (2007).
Side-chain protonation and mobility in the sarcoplasmic reticulum Ca2+-ATPase: implications for proton countertransport and Ca2+ release.
  Biophys J, 93, 3259-3270.  
17259168 K.Moncoq, C.A.Trieber, and H.S.Young (2007).
The molecular basis for cyclopiazonic acid inhibition of the sarcoplasmic reticulum calcium pump.
  J Biol Chem, 282, 9748-9757.
PDB codes: 2o9j 2oa0
17425287 K.Munson, R.J.Law, and G.Sachs (2007).
Analysis of the gastric H,K ATPase for ion pathways and inhibitor binding sites.
  Biochemistry, 46, 5398-5417.  
17601351 L.Skjaerven, I.Jonassen, and N.Reuter (2007).
TMM@: a web application for the analysis of transmembrane helix mobility.
  BMC Bioinformatics, 8, 232.  
18052534 L.Xie, J.Wang, and P.E.Bourne (2007).
In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators.
  PLoS Comput Biol, 3, e217.  
17389383 M.Takahashi, Y.Kondou, and C.Toyoshima (2007).
Interdomain communication in calcium pump as revealed in the crystal structures with transmembrane inhibitors.
  Proc Natl Acad Sci U S A, 104, 5800-5805.
PDB codes: 2ear 2eat 2eau 4ycl
  17562821 R.F.Rakowski, P.Artigas, F.Palma, M.Holmgren, P.De Weer, and D.C.Gadsby (2007).
Sodium flux ratio in Na/K pump-channels opened by palytoxin.
  J Gen Physiol, 130, 41-54.  
17639367 S.Guennoun-Lehmann, J.E.Fonseca, J.D.Horisberger, and R.F.Rakowski (2007).
Palytoxin acts on Na(+),K (+)-ATPase but not nongastric H(+),K (+)-ATPase.
  J Membr Biol, 216, 107-116.  
17464412 S.P.Andrews, M.M.Tait, M.Ball, and S.V.Ley (2007).
Design and total synthesis of unnatural analogues of the sub-nanomolar SERCA inhibitor thapsigargin.
  Org Biomol Chem, 5, 1427-1436.  
17881350 T.Daiho, K.Yamasaki, S.Danko, and H.Suzuki (2007).
Critical role of Glu40-Ser48 loop linking actuator domain and first transmembrane helix of Ca2+-ATPase in Ca2+ deocclusion and release from ADP-insensitive phosphoenzyme.
  J Biol Chem, 282, 34429-34447.  
17534481 X.Liang, D.J.Campopiano, and P.J.Sadler (2007).
Metals in membranes.
  Chem Soc Rev, 36, 968-992.  
17616523 Y.Hatori, E.Majima, T.Tsuda, and C.Toyoshima (2007).
Domain organization and movements in heavy metal ion pumps: papain digestion of CopA, a Cu+-transporting ATPase.
  J Biol Chem, 282, 25213-25221.  
16710301 A.M.Jensen, T.L.Sørensen, C.Olesen, J.V.Møller, and P.Nissen (2006).
Modulatory and catalytic modes of ATP binding by the calcium pump.
  EMBO J, 25, 2305-2314.
PDB codes: 2c88 2c8k 2c8l 2c9m
16538695 A.Mourot, T.Grutter, M.Goeldner, and F.Kotzyba-Hibert (2006).
Dynamic structural investigations on the torpedo nicotinic acetylcholine receptor by time-resolved photoaffinity labeling.
  Chembiochem, 7, 570-583.  
16893884 A.N.Anthonisen, J.D.Clausen, and J.P.Andersen (2006).
Mutational analysis of the conserved TGES loop of sarcoplasmic reticulum Ca2+-ATPase.
  J Biol Chem, 281, 31572-31582.  
17128963 C.K.Johnson (2006).
Calmodulin, conformational states, and calcium signaling. A single-molecule perspective.
  Biochemistry, 45, 14233-14246.  
16533842 D.L.Stokes, A.J.Pomfret, W.J.Rice, J.P.Glaves, and H.S.Young (2006).
Interactions between Ca2+-ATPase and the pentameric form of phospholamban in two-dimensional co-crystals.
  Biophys J, 90, 4213-4223.  
16798809 E.L.Karjalainen, A.Hardell, and A.Barth (2006).
Toward a general method to observe the phosphate groups of phosphoenzymes with infrared spectroscopy.
  Biophys J, 91, 2282-2289.  
17032645 F.Tadini-Buoninsegni, G.Bartolommei, M.R.Moncelli, R.Guidelli, and G.Inesi (2006).
Pre-steady state electrogenic events of Ca2+/H+ exchange and transport by the Ca2+-ATPase.
  J Biol Chem, 281, 37720-37727.  
17139331 G.von Heijne (2006).
Membrane-protein topology.
  Nat Rev Mol Cell Biol, 7, 909-918.  
16380945 J.Andersson, and A.Barth (2006).
FTIR studies on the bond properties of the aspartyl phosphate moiety of the Ca2+ -ATPase.
  Biopolymers, 82, 353-357.  
16449230 J.D.Clausen, D.B.McIntosh, D.G.Woolley, A.N.Anthonisen, B.Vilsen, and J.P.Andersen (2006).
Asparagine 706 and glutamate 183 at the catalytic site of sarcoplasmic reticulum Ca2+-ATPase play critical but distinct roles in E2 states.
  J Biol Chem, 281, 9471-9481.  
16283666 K.Hauser (2006).
Electrostatic calculations for assignment of infrared difference bands to carboxyl groups getting protonated during protein reactions.
  Biopolymers, 82, 430-434.  
16649212 M.Kubala (2006).
ATP-binding to P-type ATPases as revealed by biochemical, spectroscopic, and crystallographic experiments.
  Proteins, 64, 1.  
17006516 N.Reyes, and D.C.Gadsby (2006).
Ion permeation through the Na+,K+-ATPase.
  Nature, 443, 470-474.  
16894161 P.Artigas, and D.C.Gadsby (2006).
Ouabain affinity determining residues lie close to the Na/K pump ion pathway.
  Proc Natl Acad Sci U S A, 103, 12613-12618.  
17557166 P.Purhonen, K.Thomsen, A.B.Maunsbach, and H.Hebert (2006).
Association of renal Na,K-ATPase alpha-subunit with the beta- and gamma-subunits based on cryoelectron microscopy.
  J Membr Biol, 214, 139-146.  
16555307 P.W.Hildebrand, S.Lorenzen, A.Goede, and R.Preissner (2006).
Analysis and prediction of helix-helix interactions in membrane channels and transporters.
  Proteins, 64, 253-262.  
16545467 R.A.Shilling, H.Venter, S.Velamakanni, A.Bapna, B.Woebking, S.Shahi, and H.W.van Veen (2006).
New light on multidrug binding by an ATP-binding-cassette transporter.
  Trends Pharmacol Sci, 27, 195-203.  
16980302 R.E.Dempski, K.Hartung, T.Friedrich, and E.Bamberg (2006).
Fluorometric measurements of intermolecular distances between the alpha- and beta-subunits of the Na+/K+-ATPase.
  J Biol Chem, 281, 36338-36346.  
16434474 R.Nuzzo, and C.Toyoshima (2006).
Profile of Chikashi Toyoshima.
  Proc Natl Acad Sci U S A, 103, 1165-1167.  
16528786 R.P.Clausen (2006).
Organic chemistry at the interface to biology.
  Chembiochem, 7, 845-849.  
17193013 S.E.Létant, C.M.Schaldach, M.R.Johnson, A.Sawvel, W.L.Bourcier, and W.D.Wilson (2006).
Pore conductivity control at the hundred-nanometer scale: an experimental and theoretical study.
  Small, 2, 1504-1510.  
16632466 V.Rodacker, M.Toustrup-Jensen, and B.Vilsen (2006).
Mutations Phe785Leu and Thr618Met in Na+,K+-ATPase, associated with familial rapid-onset dystonia parkinsonism, interfere with Na+ interaction by distinct mechanisms.
  J Biol Chem, 281, 18539-18548.  
16766529 Y.Miyauchi, T.Daiho, K.Yamasaki, H.Takahashi, A.Ishida-Yamamoto, S.Danko, H.Suzuki, and H.Iizuka (2006).
Comprehensive analysis of expression and function of 51 sarco(endo)plasmic reticulum Ca2+-ATPase mutants associated with Darier disease.
  J Biol Chem, 281, 22882-22895.  
15937493 A.C.Uhlemann, A.Cameron, U.Eckstein-Ludwig, J.Fischbarg, P.Iserovich, F.A.Zuniga, M.East, A.Lee, L.Brady, R.K.Haynes, and S.Krishna (2005).
A single amino acid residue can determine the sensitivity of SERCAs to artemisinins.
  Nat Struct Mol Biol, 12, 628-629.  
16049100 A.P.Einholm, M.Toustrup-Jensen, J.P.Andersen, and B.Vilsen (2005).
Mutation of Gly-94 in transmembrane segment M1 of Na+,K+-ATPase interferes with Na+ and K+ binding in E2P conformation.
  Proc Natl Acad Sci U S A, 102, 11254-11259.  
16107561 A.Zatti, V.Chauvet, V.Rajendran, T.Kimura, P.Pagel, and M.J.Caplan (2005).
The C-terminal tail of the polycystin-1 protein interacts with the Na,K-ATPase alpha-subunit.
  Mol Biol Cell, 16, 5087-5093.  
16123128 C.Li, O.Capendeguy, K.Geering, and J.D.Horisberger (2005).
A third Na+-binding site in the sodium pump.
  Proc Natl Acad Sci U S A, 102, 12706-12711.  
15734741 D.L.Stokes, F.Delavoie, W.J.Rice, P.Champeil, D.B.McIntosh, and J.J.Lacapère (2005).
Structural studies of a stabilized phosphoenzyme intermediate of Ca2+-ATPase.
  J Biol Chem, 280, 18063-18072.  
15708860 E.Cohen, R.Goldshleger, A.Shainskaya, D.M.Tal, C.Ebel, M.le Maire, and S.J.Karlish (2005).
Purification of Na+,K+-ATPase expressed in Pichia pastoris reveals an essential role of phospholipid-protein interactions.
  J Biol Chem, 280, 16610-16618.  
16691466 G.Inesi, S.Hua, C.Xu, H.Ma, M.Seth, A.M.Prasad, and C.Sumbilla (2005).
Studies of Ca2+ ATPase (SERCA) inhibition.
  J Bioenerg Biomembr, 37, 365-368.  
15901722 G.Wang, K.Yamasaki, T.Daiho, and H.Suzuki (2005).
Critical hydrophobic interactions between phosphorylation and actuator domains of Ca2+-ATPase for hydrolysis of phosphorylated intermediate.
  J Biol Chem, 280, 26508-26516.  
16691465 J.V.Møller, C.Olesen, A.M.Jensen, and P.Nissen (2005).
The structural basis for coupling of Ca2+ transport to ATP hydrolysis by the sarcoplasmic reticulum Ca2+-ATPase.
  J Bioenerg Biomembr, 37, 359-364.  
15781867 J.Zamoon, F.Nitu, C.Karim, D.D.Thomas, and G.Veglia (2005).
Mapping the interaction surface of a membrane protein: unveiling the conformational switch of phospholamban in calcium pump regulation.
  Proc Natl Acad Sci U S A, 102, 4747-4752.  
16150713 K.Obara, N.Miyashita, C.Xu, I.Toyoshima, Y.Sugita, G.Inesi, and C.Toyoshima (2005).
Structural role of countertransport revealed in Ca(2+) pump crystal structure in the absence of Ca(2+).
  Proc Natl Acad Sci U S A, 102, 14489-14496.
PDB code: 2agv
16037212 L.Segall, A.Mezzetti, R.Scanzano, J.J.Gargus, E.Purisima, and R.Blostein (2005).
Alterations in the alpha2 isoform of Na,K-ATPase associated with familial hemiplegic migraine type 2.
  Proc Natl Acad Sci U S A, 102, 11106-11111.  
16051601 L.Y.Qiu, E.Krieger, G.Schaftenaar, H.G.Swarts, P.H.Willems, J.J.De Pont, and J.B.Koenderink (2005).
Reconstruction of the complete ouabain-binding pocket of Na,K-ATPase in gastric H,K-ATPase by substitution of only seven amino acids.
  J Biol Chem, 280, 32349-32355.  
16087876 M.Jidenko, R.C.Nielsen, T.L.Sørensen, J.V.Møller, M.le Maire, P.Nissen, and C.Jaxel (2005).
Crystallization of a mammalian membrane protein overexpressed in Saccharomyces cerevisiae.
  Proc Natl Acad Sci U S A, 102, 11687-11691.  
16169973 M.Liu, M.Krasteva, and A.Barth (2005).
Interactions of phosphate groups of ATP and Aspartyl phosphate with the sarcoplasmic reticulum Ca2+-ATPase: an FTIR study.
  Biophys J, 89, 4352-4363.  
15574410 M.Toustrup-Jensen, and B.Vilsen (2005).
Interaction between the catalytic site and the A-M3 linker stabilizes E2/E2P conformational states of Na+,K+-ATPase.
  J Biol Chem, 280, 10210-10218.  
15774534 O.Capendeguy, and J.D.Horisberger (2005).
The role of the third extracellular loop of the Na+,K+-ATPase alpha subunit in a luminal gating mechanism.
  J Physiol, 565, 207-218.  
  15851504 R.E.Dempski, T.Friedrich, and E.Bamberg (2005).
The beta subunit of the Na+/K+-ATPase follows the conformational state of the holoenzyme.
  J Gen Physiol, 125, 505-520.  
15746094 S.Hua, C.Xu, H.Ma, and G.Inesi (2005).
Interference with phosphoenzyme isomerization and inhibition of the sarco-endoplasmic reticulum Ca2+ ATPase by 1,3-dibromo-2,4,6-tris(methylisothiouronium) benzene.
  J Biol Chem, 280, 17579-17583.  
16133099 S.Silver, and l.e. .T.Phung (2005).
A bacterial view of the periodic table: genes and proteins for toxic inorganic ions.
  J Ind Microbiol Biotechnol, 32, 587-605.  
16039561 S.Sokolov, T.Scheuer, and W.A.Catterall (2005).
Ion permeation through a voltage- sensitive gating pore in brain sodium channels having voltage sensor mutations.
  Neuron, 47, 183-189.  
15919665 Y.A.Mahmmoud, H.Vorum, and F.Cornelius (2005).
Interaction of FXYD10 (PLMS) with Na,K-ATPase from shark rectal glands. Close proximity of Cys74 of FXYD10 to Cys254 in the a domain of the alpha-subunit revealed by intermolecular thiol cross-linking.
  J Biol Chem, 280, 27776-27782.  
15618517 C.Olesen, T.L.Sørensen, R.C.Nielsen, J.V.Møller, and P.Nissen (2004).
Dephosphorylation of the calcium pump coupled to counterion occlusion.
  Science, 306, 2251-2255.
PDB code: 1xp5
15549083 C.R.Lancaster (2004).
Structural biology: ion pump in the movies.
  Nature, 432, 286-287.  
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.

 

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