+Open data
-Basic information
Entry | Database: PDB / ID: 5xf0 | ||||||
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Title | Solution structure of the IgI domain of CD147 | ||||||
Components | Basigin | ||||||
Keywords | IMMUNE SYSTEM / IG-like Domain | ||||||
Function / homology | Function and homology information Defective SLC16A1 causes symptomatic deficiency in lactate transport (SDLT) / Proton-coupled monocarboxylate transport / positive regulation of matrix metallopeptidase secretion / acrosomal membrane / dendrite self-avoidance / response to mercury ion / cell-cell adhesion mediator activity / endothelial tube morphogenesis / neural retina development / Pyruvate metabolism ...Defective SLC16A1 causes symptomatic deficiency in lactate transport (SDLT) / Proton-coupled monocarboxylate transport / positive regulation of matrix metallopeptidase secretion / acrosomal membrane / dendrite self-avoidance / response to mercury ion / cell-cell adhesion mediator activity / endothelial tube morphogenesis / neural retina development / Pyruvate metabolism / photoreceptor cell maintenance / Basigin interactions / Aspirin ADME / odontogenesis of dentin-containing tooth / homophilic cell adhesion via plasma membrane adhesion molecules / D-mannose binding / decidualization / photoreceptor outer segment / positive regulation of vascular endothelial growth factor production / Integrin cell surface interactions / response to cAMP / embryo implantation / Degradation of the extracellular matrix / photoreceptor inner segment / positive regulation of endothelial cell migration / neutrophil chemotaxis / protein localization to plasma membrane / axon guidance / sarcolemma / response to peptide hormone / positive regulation of interleukin-6 production / melanosome / virus receptor activity / signaling receptor activity / basolateral plasma membrane / angiogenesis / positive regulation of viral entry into host cell / cell surface receptor signaling pathway / endosome / cadherin binding / axon / Golgi membrane / intracellular membrane-bounded organelle / focal adhesion / endoplasmic reticulum membrane / mitochondrion / extracellular exosome / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Jin, S.J. / Xia, B. | ||||||
Citation | Journal: Protein Cell / Year: 2018 Title: Zn(II) can mediate self-association of the extracellular C-terminal domain of CD147 Authors: Jin, S. / Ding, P. / Chu, P. / Li, H. / Sun, J. / Liang, D. / Song, F. / Xia, B. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5xf0.cif.gz | 646.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5xf0.ent.gz | 564.3 KB | Display | PDB format |
PDBx/mmJSON format | 5xf0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5xf0_validation.pdf.gz | 399.7 KB | Display | wwPDB validaton report |
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Full document | 5xf0_full_validation.pdf.gz | 500 KB | Display | |
Data in XML | 5xf0_validation.xml.gz | 30.6 KB | Display | |
Data in CIF | 5xf0_validation.cif.gz | 56.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xf/5xf0 ftp://data.pdbj.org/pub/pdb/validation_reports/xf/5xf0 | HTTPS FTP |
-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: 12008.415 Da / Num. of mol.: 1 / Fragment: UNP residues 215-321 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: BSG, UNQ6505/PRO21383 / Production host: Escherichia coli (E. coli) / Strain (production host): origami B(DE3) / References: UniProt: P35613 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution / Contents: 0.5mM [U-13C; U-15N] CD147, 90% H2O/10% D2O / Label: 13C_15N_sample / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.5 mM / Component: CD147 / Isotopic labeling: [U-13C; U-15N] |
Sample conditions | Details: 50mM PBS 50mM NaCl 5mM EDTA / Ionic strength: 100 mM / Label: conditions_1 / pH: 7.0 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: the structures are b5059 are NOE-derived distance constraints, 143 dihedral angle restraints | |||||||||||||||
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 |