+Open data
-Basic information
Entry | Database: PDB / ID: 2ms4 | ||||||
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Title | Cyclophilin a complexed with a fragment of crk-ii | ||||||
Components |
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Keywords | ISOMERASE / CYCLOPHILIN A | ||||||
Function / homology | Function and homology information response to hepatocyte growth factor / regulation of intracellular signal transduction / cellular response to endothelin / helper T cell diapedesis / cerebellar neuron development / response to cholecystokinin / postsynaptic specialization assembly / protein phosphorylated amino acid binding / regulation of T cell migration / reelin-mediated signaling pathway ...response to hepatocyte growth factor / regulation of intracellular signal transduction / cellular response to endothelin / helper T cell diapedesis / cerebellar neuron development / response to cholecystokinin / postsynaptic specialization assembly / protein phosphorylated amino acid binding / regulation of T cell migration / reelin-mediated signaling pathway / regulation of dendrite development / positive regulation of skeletal muscle acetylcholine-gated channel clustering / response to yeast / negative regulation of wound healing / negative regulation of natural killer cell mediated cytotoxicity / regulation of protein binding / negative regulation of cell motility / negative regulation of protein K48-linked ubiquitination / negative regulation of viral life cycle / regulation of apoptotic signaling pathway / cell adhesion molecule production / lipid droplet organization / ARMS-mediated activation / heparan sulfate binding / regulation of viral genome replication / MET receptor recycling / protein localization to membrane / leukocyte chemotaxis / negative regulation of stress-activated MAPK cascade / endothelial cell activation / MET activates RAP1 and RAC1 / virion binding / Basigin interactions / cellular response to insulin-like growth factor stimulus / cyclosporin A binding / establishment of cell polarity / regulation of GTPase activity / p130Cas linkage to MAPK signaling for integrins / Minus-strand DNA synthesis / Plus-strand DNA synthesis / Uncoating of the HIV Virion / positive regulation of smooth muscle cell migration / dendrite development / Early Phase of HIV Life Cycle / positive regulation of Rac protein signal transduction / Integration of provirus / APOBEC3G mediated resistance to HIV-1 infection / regulation of cell adhesion mediated by integrin / Calcineurin activates NFAT / viral release from host cell / cellular response to nitric oxide / regulation of signal transduction / ephrin receptor signaling pathway / Binding and entry of HIV virion / positive regulation of viral genome replication / protein peptidyl-prolyl isomerization / PTK6 Regulates RHO GTPases, RAS GTPase and MAP kinases / signaling adaptor activity / negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / positive regulation of substrate adhesion-dependent cell spreading / positive regulation of protein dephosphorylation / cellular response to transforming growth factor beta stimulus / insulin-like growth factor receptor binding / cytoskeletal protein binding / Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation / activation of protein kinase B activity / phosphotyrosine residue binding / SH2 domain binding / ephrin receptor binding / cell chemotaxis / Downstream signal transduction / neutrophil chemotaxis / protein tyrosine kinase binding / cellular response to nerve growth factor stimulus / negative regulation of protein phosphorylation / peptidylprolyl isomerase / peptidyl-prolyl cis-trans isomerase activity / positive regulation of protein secretion / Regulation of signaling by CBL / hippocampus development / regulation of actin cytoskeleton organization / FCGR3A-mediated phagocytosis / positive regulation of JNK cascade / negative regulation of protein kinase activity / Assembly Of The HIV Virion / neuron migration / neuromuscular junction / Budding and maturation of HIV virion / neuron differentiation / response to hydrogen peroxide / lipid metabolic process / receptor tyrosine kinase binding / Regulation of actin dynamics for phagocytic cup formation / cerebral cortex development / platelet activation / platelet aggregation / kinase binding / VEGFA-VEGFR2 Pathway / SH3 domain binding / : Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Jankowski, W. / Saleh, T. / Rossi, P. / Kalodimos, C. | ||||||
Citation | Journal: Nat.Chem.Biol. / Year: 2016 Title: Cyclophilin A promotes cell migration via the Abl-Crk signaling pathway. Authors: Saleh, T. / Jankowski, W. / Sriram, G. / Rossi, P. / Shah, S. / Lee, K.B. / Cruz, L.A. / Rodriguez, A.J. / Birge, R.B. / Kalodimos, C.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ms4.cif.gz | 1.1 MB | Display | PDBx/mmCIF format |
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PDB format | pdb2ms4.ent.gz | 1000.4 KB | Display | PDB format |
PDBx/mmJSON format | 2ms4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ms/2ms4 ftp://data.pdbj.org/pub/pdb/validation_reports/ms/2ms4 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 18036.504 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: PPIA, CYPA / Production host: Escherichia coli (E. coli) / References: UniProt: P62937, peptidylprolyl isomerase |
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#2: Protein/peptide | Mass: 955.020 Da / Num. of mol.: 1 / Source method: obtained synthetically / References: UniProt: P46108*PLUS |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.8 mM [U-100% 13C; U-100% 15N] protein_1, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.8 mM / Component: entity_1-1 / Isotopic labeling: [U-100% 13C; U-100% 15N] |
Sample conditions | Ionic strength: 0.1 / pH: 6.8 / Pressure: ambient / Temperature: 305 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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-Processing
NMR software |
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NMR representative | Selection criteria: lowest energy | |||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |