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Yorodumi- PDB-1r0y: Cystic fibrosis transmembrane conductance regulator (CFTR) nucleo... -
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-Basic information
Entry | Database: PDB / ID: 1r0y | ||||||
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Title | Cystic fibrosis transmembrane conductance regulator (CFTR) nucleotide-binding domain one (NBD1) with ADP | ||||||
Components | Cystic fibrosis transmembrane conductance regulator | ||||||
Keywords | TRANSPORT PROTEIN / ABC transporter nucleotide binding domain | ||||||
Function / homology | Function and homology information RHO GTPases regulate CFTR trafficking / RHOQ GTPase cycle / positive regulation of mast cell activation / transepithelial chloride transport / positive regulation of establishment of Sertoli cell barrier / Aggrephagy / positive regulation of cyclic nucleotide-gated ion channel activity / Sec61 translocon complex binding / channel-conductance-controlling ATPase / intracellularly ATP-gated chloride channel activity ...RHO GTPases regulate CFTR trafficking / RHOQ GTPase cycle / positive regulation of mast cell activation / transepithelial chloride transport / positive regulation of establishment of Sertoli cell barrier / Aggrephagy / positive regulation of cyclic nucleotide-gated ion channel activity / Sec61 translocon complex binding / channel-conductance-controlling ATPase / intracellularly ATP-gated chloride channel activity / water transport / positive regulation of enamel mineralization / transepithelial water transport / negative regulation of vascular associated smooth muscle cell apoptotic process / intracellular pH elevation / enamel mineralization / negative regulation of type B pancreatic cell development / amelogenesis / chloride channel inhibitor activity / Cargo recognition for clathrin-mediated endocytosis / ABC-family proteins mediated transport / Clathrin-mediated endocytosis / multicellular organismal-level water homeostasis / vesicle docking involved in exocytosis / Ub-specific processing proteases / cholesterol transport / membrane hyperpolarization / bicarbonate transmembrane transporter activity / bicarbonate transport / chloride transport / chloride transmembrane transporter activity / sperm capacitation / chloride channel activity / cholesterol biosynthetic process / positive regulation of exocytosis / positive regulation of insulin secretion involved in cellular response to glucose stimulus / microvillus / chloride channel complex / ATPase-coupled transmembrane transporter activity / sodium ion transmembrane transport / ABC-type transporter activity / cellular response to forskolin / cellular response to cAMP / isomerase activity / chloride transmembrane transport / response to endoplasmic reticulum stress / PDZ domain binding / establishment of localization in cell / lung development / recycling endosome / vasodilation / recycling endosome membrane / protein-folding chaperone binding / early endosome membrane / basolateral plasma membrane / early endosome / response to xenobiotic stimulus / apical plasma membrane / dendrite / neuronal cell body / endoplasmic reticulum membrane / enzyme binding / cell surface / ATP hydrolysis activity / protein-containing complex / ATP binding / membrane / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.55 Å | ||||||
Authors | Lewis, H.A. / Buchanan, S.G. / Burley, S.K. / Conners, K. / Dickey, M. / Dorwart, M. / Fowler, R. / Gao, X. / Guggino, W.B. / Hendrickson, W.A. | ||||||
Citation | Journal: Embo J. / Year: 2004 Title: Structure of nucleotide-binding domain 1 of the cystic fibrosis transmembrane conductance regulator. Authors: Lewis, H.A. / Buchanan, S.G. / Burley, S.K. / Conners, K. / Dickey, M. / Dorwart, M. / Fowler, R. / Gao, X. / Guggino, W.B. / Hendrickson, W.A. / Hunt, J.F. / Kearins, M.C. / Lorimer, D. / ...Authors: Lewis, H.A. / Buchanan, S.G. / Burley, S.K. / Conners, K. / Dickey, M. / Dorwart, M. / Fowler, R. / Gao, X. / Guggino, W.B. / Hendrickson, W.A. / Hunt, J.F. / Kearins, M.C. / Lorimer, D. / Maloney, P.C. / Post, K.W. / Rajashankar, K.R. / Rutter, M.E. / Sauder, J.M. / Shriver, S. / Thibodeau, P.H. / Thomas, P.J. / Zhang, M. / Zhao, X. / Emtage, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1r0y.cif.gz | 227.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1r0y.ent.gz | 183.4 KB | Display | PDB format |
PDBx/mmJSON format | 1r0y.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/r0/1r0y ftp://data.pdbj.org/pub/pdb/validation_reports/r0/1r0y | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 32098.324 Da / Num. of mol.: 4 / Fragment: NBD1 domain (residues 389-673) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: CFTR OR ABCC7 / Plasmid: pET26b / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P26361 #2: Chemical | ChemComp-ADP / #3: Chemical | ChemComp-ACY / #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.15 Å3/Da / Density % sol: 61 % | |||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: Sodium acetate,, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K | |||||||||||||||
Crystal grow | *PLUS Temperature: 4, 20 ℃ / Method: vapor diffusion, hanging drop | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 31-ID / Wavelength: 0.9198 Å |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Jul 23, 2003 |
Radiation | Monochromator: Diamond 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9198 Å / Relative weight: 1 |
Reflection | Resolution: 2.55→36.5 Å / Num. obs: 53962 / % possible obs: 100 % / Rsym value: 0.077 |
Reflection shell | Resolution: 2.55→2.7 Å / Rsym value: 0.35 / % possible all: 100 |
Reflection | *PLUS Redundancy: 9.8 % / Rmerge(I) obs: 0.077 |
Reflection shell | *PLUS % possible obs: 99.4 % / Redundancy: 9.9 % / Rmerge(I) obs: 0.35 / Mean I/σ(I) obs: 1.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.55→36 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.55→36 Å
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Refine LS restraints |
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