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Yorodumi- PDB-1nwv: SOLUTION STRUCTURE OF A FUNCTIONALLY ACTIVE COMPONENT OF DECAY AC... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1nwv | ||||||
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Title | SOLUTION STRUCTURE OF A FUNCTIONALLY ACTIVE COMPONENT OF DECAY ACCELERATING FACTOR | ||||||
Components | Complement decay-accelerating factor | ||||||
Keywords | BIOSYNTHETIC PROTEIN / CD55 / DAF / CCP / complement | ||||||
Function / homology | Function and homology information regulation of lipopolysaccharide-mediated signaling pathway / negative regulation of complement activation / regulation of complement-dependent cytotoxicity / regulation of complement activation / respiratory burst / positive regulation of CD4-positive, alpha-beta T cell activation / positive regulation of CD4-positive, alpha-beta T cell proliferation / Class B/2 (Secretin family receptors) / ficolin-1-rich granule membrane / side of membrane ...regulation of lipopolysaccharide-mediated signaling pathway / negative regulation of complement activation / regulation of complement-dependent cytotoxicity / regulation of complement activation / respiratory burst / positive regulation of CD4-positive, alpha-beta T cell activation / positive regulation of CD4-positive, alpha-beta T cell proliferation / Class B/2 (Secretin family receptors) / ficolin-1-rich granule membrane / side of membrane / COPI-mediated anterograde transport / transport vesicle / endoplasmic reticulum-Golgi intermediate compartment membrane / complement activation, classical pathway / secretory granule membrane / Regulation of Complement cascade / positive regulation of T cell cytokine production / virus receptor activity / positive regulation of cytosolic calcium ion concentration / membrane raft / Golgi membrane / innate immune response / lipid binding / Neutrophil degranulation / cell surface / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Authors | Uhrinova, S. / Lin, F. / Ball, G. / Bromek, K. / Uhrin, D. / Medof, M.E. / Barlow, P.N. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2003 Title: Solution structure of a functionally active fragment of decay-accelerating factor Authors: Uhrinova, S. / Lin, F. / Ball, G. / Bromek, K. / Uhrin, D. / Medof, M.E. / Barlow, P.N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nwv.cif.gz | 1.6 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1nwv.ent.gz | 1.4 MB | Display | PDB format |
PDBx/mmJSON format | 1nwv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1nwv_validation.pdf.gz | 343.6 KB | Display | wwPDB validaton report |
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Full document | 1nwv_full_validation.pdf.gz | 731.3 KB | Display | |
Data in XML | 1nwv_validation.xml.gz | 150.6 KB | Display | |
Data in CIF | 1nwv_validation.cif.gz | 196.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nw/1nwv ftp://data.pdbj.org/pub/pdb/validation_reports/nw/1nwv | HTTPS FTP |
-Related structure data
Similar structure data |
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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: 14351.303 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: DAF OR CR OR CD55 / Plasmid: pPICZalphaA / Production host: Pichia pastoris (fungus) / References: UniProt: P08174 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using double labelled sample |
-Sample preparation
Details | Contents: 0.9 mM protein -15N,13C; 50mM sodium acetate buffer; 90% H2O, 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | pH: 5 / Pressure: ambient / Temperature: 310 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 / Details: 2440 NOEs, 59 RDC | ||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 190 / Conformers submitted total number: 42 |