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- PDB-2lob: PDZ Domain of CAL (Cystic Fibrosis Transmembrane Regulator-Associ... -

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Basic information

Entry
Database: PDB / ID: 2lob
TitlePDZ Domain of CAL (Cystic Fibrosis Transmembrane Regulator-Associated Ligand)
Components
  • Cystic fibrosis transmembrane conductance regulator
  • Golgi-associated PDZ and coiled-coil motif-containing protein
KeywordsPEPTIDE BINDING PROTEIN / STRUCTURAL PROTEIN-HYDROLASE complex
Function / homology
Function and homology information


negative regulation of anion channel activity / positive regulation of voltage-gated chloride channel activity / positive regulation of cyclic nucleotide-gated ion channel activity / Sec61 translocon complex binding / channel-conductance-controlling ATPase / intracellularly ATP-gated chloride channel activity / positive regulation of enamel mineralization / transepithelial water transport / RHO GTPases regulate CFTR trafficking / intracellular pH elevation ...negative regulation of anion channel activity / positive regulation of voltage-gated chloride channel activity / positive regulation of cyclic nucleotide-gated ion channel activity / Sec61 translocon complex binding / channel-conductance-controlling ATPase / intracellularly ATP-gated chloride channel activity / positive regulation of enamel mineralization / transepithelial water transport / RHO GTPases regulate CFTR trafficking / intracellular pH elevation / negative regulation of protein localization to cell surface / amelogenesis / chloride channel inhibitor activity / ATPase-coupled inorganic anion transmembrane transporter activity / Golgi-associated vesicle membrane / Golgi to plasma membrane transport / apical protein localization / multicellular organismal-level water homeostasis / molecular sequestering activity / trans-Golgi network transport vesicle / membrane hyperpolarization / cholesterol transport / bicarbonate transport / bicarbonate transmembrane transporter activity / vesicle docking involved in exocytosis / chloride channel regulator activity / chloride transmembrane transporter activity / sperm capacitation / chloride channel activity / RHOQ GTPase cycle / cholesterol biosynthetic process / positive regulation of exocytosis / positive regulation of insulin secretion involved in cellular response to glucose stimulus / chloride channel complex / ATPase-coupled transmembrane transporter activity / ABC-type transporter activity / endoplasmic reticulum to Golgi vesicle-mediated transport / cellular response to cAMP / cellular response to forskolin / chloride transmembrane transport / isomerase activity / response to endoplasmic reticulum stress / establishment of localization in cell / PDZ domain binding / Defective CFTR causes cystic fibrosis / Late endosomal microautophagy / clathrin-coated endocytic vesicle membrane / ABC-family proteins mediated transport / recycling endosome / transmembrane transport / Aggrephagy / Chaperone Mediated Autophagy / recycling endosome membrane / protein transport / Cargo recognition for clathrin-mediated endocytosis / Clathrin-mediated endocytosis / early endosome membrane / protein-folding chaperone binding / transmembrane transporter binding / postsynaptic density / early endosome / endosome membrane / Ub-specific processing proteases / apical plasma membrane / lysosomal membrane / Golgi membrane / dendrite / endoplasmic reticulum membrane / Golgi apparatus / enzyme binding / cell surface / ATP hydrolysis activity / protein-containing complex / ATP binding / identical protein binding / membrane / nucleus / plasma membrane / cytoplasm / cytosol
Similarity search - Function
Golgi-associated PDZ and coiled-coil motif-containing protein / : / CFTR regulator domain / Cystic fibrosis TM conductance regulator (CFTR), regulator domain / Cystic fibrosis transmembrane conductance regulator / PDZ domain / Pdz3 Domain / ABC transporter transmembrane region / ABC transporter type 1, transmembrane domain / ABC transporter integral membrane type-1 fused domain profile. ...Golgi-associated PDZ and coiled-coil motif-containing protein / : / CFTR regulator domain / Cystic fibrosis TM conductance regulator (CFTR), regulator domain / Cystic fibrosis transmembrane conductance regulator / PDZ domain / Pdz3 Domain / ABC transporter transmembrane region / ABC transporter type 1, transmembrane domain / ABC transporter integral membrane type-1 fused domain profile. / ABC transporter type 1, transmembrane domain superfamily / PDZ domain / ABC transporter-like, conserved site / ABC transporters family signature. / PDZ domain profile. / Domain present in PSD-95, Dlg, and ZO-1/2. / PDZ domain / PDZ superfamily / ABC transporter / ABC transporter-like, ATP-binding domain / ATP-binding cassette, ABC transporter-type domain profile. / Roll / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / P-loop containing nucleoside triphosphate hydrolase / Mainly Beta
Similarity search - Domain/homology
Cystic fibrosis transmembrane conductance regulator / Golgi-associated PDZ and coiled-coil motif-containing protein
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / DGSA-distance geometry simulated annealing
Model detailslowest energy, model 1
AuthorsPiserchio, A. / Fellows, A. / Madden, D.R. / Mierke, D.F.
CitationJournal: Biochemistry / Year: 2005
Title: Association of the cystic fibrosis transmembrane regulator with CAL: structural features and molecular dynamics.
Authors: Piserchio, A. / Fellows, A. / Madden, D.R. / Mierke, D.F.
History
DepositionJan 20, 2012Deposition site: BMRB / Processing site: RCSB
Revision 1.0Jun 13, 2012Provider: repository / Type: Initial release
Revision 1.1May 1, 2024Group: Data collection / Database references
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_nmr_software / pdbx_nmr_spectrometer / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name / _pdbx_nmr_spectrometer.model / _struct_ref_seq_dif.details

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: Golgi-associated PDZ and coiled-coil motif-containing protein
B: Cystic fibrosis transmembrane conductance regulator


Theoretical massNumber of molelcules
Total (without water)13,5182
Polymers13,5182
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)7 / 100structures with the lowest energy
RepresentativeModel #1lowest energy

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Components

#1: Protein Golgi-associated PDZ and coiled-coil motif-containing protein / CFTR-associated ligand / Fused in glioblastoma / PDZ protein interacting specifically with TC10 / PIST


Mass: 12528.140 Da / Num. of mol.: 1 / Fragment: PDZ domain residues 286-370
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: GOPC, CAL, FIG / Production host: Escherichia coli (E. coli) / References: UniProt: Q9HD26
#2: Protein/peptide Cystic fibrosis transmembrane conductance regulator / CFTR / ATP-binding cassette sub-family C member 7 / Channel conductance-controlling ATPase / cAMP- ...CFTR / ATP-binding cassette sub-family C member 7 / Channel conductance-controlling ATPase / cAMP-dependent chloride channel


Mass: 990.046 Da / Num. of mol.: 1 / Fragment: PDZ-binding motif residues 1473-1480
Source method: isolated from a genetically manipulated source
Source: (synth.) Homo sapiens (human) / References: UniProt: P13569, EC: 3.6.3.49

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1112D 1H-15N HSQC
1212D 1H-13C HSQC

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Sample preparation

DetailsContents: 1.0 mM [U-100% 13C; U-100% 15N] protein_1, 90% H2O/10% D2O
Solvent system: 90% H2O/10% D2O
SampleConc.: 1.0 mM / Component: entity_1-1 / Isotopic labeling: [U-100% 13C; U-100% 15N]
Sample conditionsIonic strength: 1.0 / pH: 6.8 / Pressure: ambient / Temperature: 310 K

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NMR measurement

NMR spectrometerType: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz

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Processing

NMR software
NameDeveloperClassification
SparkyGoddardchemical shift assignment
SparkyGoddardrefinement
RefinementMethod: DGSA-distance geometry simulated annealing / Software ordinal: 1
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 100 / Conformers submitted total number: 7

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