+Open data
-Basic information
Entry | Database: PDB / ID: 6uz5 | ||||||
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Title | Solution structure of KTI55-Kringle 2 complex | ||||||
Components |
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Keywords | PROTEIN BINDING / Plasminogen binding peptide | ||||||
Function / homology | Function and homology information plasmin / trans-synaptic signaling by BDNF, modulating synaptic transmission / trophoblast giant cell differentiation / tissue remodeling / tissue regeneration / protein antigen binding / mononuclear cell migration / Signaling by PDGF / negative regulation of cell-cell adhesion mediated by cadherin / positive regulation of fibrinolysis ...plasmin / trans-synaptic signaling by BDNF, modulating synaptic transmission / trophoblast giant cell differentiation / tissue remodeling / tissue regeneration / protein antigen binding / mononuclear cell migration / Signaling by PDGF / negative regulation of cell-cell adhesion mediated by cadherin / positive regulation of fibrinolysis / Dissolution of Fibrin Clot / negative regulation of cell-substrate adhesion / myoblast differentiation / biological process involved in interaction with symbiont / labyrinthine layer blood vessel development / muscle cell cellular homeostasis / Activation of Matrix Metalloproteinases / apolipoprotein binding / extracellular matrix disassembly / positive regulation of blood vessel endothelial cell migration / negative regulation of fibrinolysis / fibrinolysis / Degradation of the extracellular matrix / serine-type peptidase activity / platelet alpha granule lumen / kinase binding / Schaffer collateral - CA1 synapse / Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) / blood coagulation / Platelet degranulation / protein-folding chaperone binding / endopeptidase activity / protease binding / collagen-containing extracellular matrix / blood microparticle / protein domain specific binding / negative regulation of cell population proliferation / external side of plasma membrane / serine-type endopeptidase activity / signaling receptor binding / glutamatergic synapse / enzyme binding / cell surface / proteolysis / extracellular space / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) Streptococcus pyogenes (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Qiu, C. / Yuan, Y. / Castellino, F.J. | ||||||
Funding support | United States, 1items
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Citation | Journal: To Be Published Title: Structural evolution of the A-domain in plasminogen-binding Group A streptococcal M-protein reflects improved adaptability of the pathogen to the host Authors: Qiu, C. / Yuan, Y. / Ploplis, V.A. / Castellino, F.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6uz5.cif.gz | 852.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6uz5.ent.gz | 741.1 KB | Display | PDB format |
PDBx/mmJSON format | 6uz5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uz/6uz5 ftp://data.pdbj.org/pub/pdb/validation_reports/uz/6uz5 | HTTPS FTP |
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-Related structure data
Related structure data | 6uz4C C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 10166.340 Da / Num. of mol.: 1 / Mutation: C11G, E63D, L79Y Source method: isolated from a genetically manipulated source Details: The terminal residues, YVEFSEE and AA, are not derived from kringle 2 domain of human plasminogen. Source: (gene. exp.) Homo sapiens (human) / Gene: PLG / Production host: Komagataella pastoris (fungus) / References: UniProt: P00747, plasmin |
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#2: Protein | Mass: 6799.461 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptococcus pyogenes (bacteria) / Strain: SS1448 / Gene: emm / Plasmid: pET15b / Production host: Escherichia coli (E. coli) / References: UniProt: M4I070 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | Ionic strength: 20 mM / Label: conditions_1 / pH: 6.7 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 6 | |||||||||||||||||||||
NMR representative | Selection criteria: fewest violations | |||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 2000 / Conformers submitted total number: 20 |