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Yorodumi- PDB-1ayj: DETERMINATION OF THE THREE-DIMENSIONAL SOLUTION STRUCTURE OF RAPH... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ayj | |||||||||
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Title | DETERMINATION OF THE THREE-DIMENSIONAL SOLUTION STRUCTURE OF RAPHANUS SATIVUS ANTIFUNGAL PROTEIN 1 (RS-AFP1) BY 1H NMR, 20 STRUCTURES | |||||||||
Components | ANTIFUNGAL PROTEIN 1 | |||||||||
Keywords | FUNGICIDE / PLANT DEFENSIN / CYSTEINE-STABILIZED ALFA/BETA MOTIF | |||||||||
Function / homology | Function and homology information defense response to fungus / killing of cells of another organism / extracellular region Similarity search - Function | |||||||||
Biological species | Raphanus sativus var. niger (Chinese radish) | |||||||||
Method | SOLUTION NMR / DIANA, SIMULATED ANNEALING | |||||||||
Authors | Fant, F. / Borremans, F.A.M. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 1998 Title: Determination of the three-dimensional solution structure of Raphanus sativus antifungal protein 1 by 1H NMR. Authors: Fant, F. / Vranken, W. / Broekaert, W. / Borremans, F. #1: Journal: Bull.Soc.Chim.Belg. / Year: 1997 Title: Solution Conformation of Raphanus Sativus Antifungal Protein 1 (Rs-Afp1) by 1H Nuclear Magnetic Resonance. Resonance Assignments, Secondary Structure and Global Fold Authors: Fant, F. / Vranken, W.F. / Martins, J.C. / Borremans, F.A.M. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ayj.cif.gz | 299.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ayj.ent.gz | 259.9 KB | Display | PDB format |
PDBx/mmJSON format | 1ayj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ay/1ayj ftp://data.pdbj.org/pub/pdb/validation_reports/ay/1ayj | HTTPS FTP |
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-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: 5685.550 Da / Num. of mol.: 1 / Source method: isolated from a natural source Source: (natural) Raphanus sativus var. niger (Chinese radish) Organ: SEED / Species: Raphanus sativus / Strain: var. niger / References: UniProt: P30231, UniProt: P69241*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Sample conditions | pH: 4.2 / Temperature: 305 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker AM500 / Manufacturer: Bruker / Model: AM500 / Field strength: 500 MHz |
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-Processing
Software | Name: AMBER / Classification: refinement | ||||||||||||
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NMR software |
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Refinement | Method: DIANA, SIMULATED ANNEALING / Software ordinal: 1 Details: SIMULATED ANNEALING PROTOCOL ADOPTED NILGES ET AL. 1988, FEBS LETTERS, VOL. 239, PP129-136. INSIGHT II ALSO WAS USED. | ||||||||||||
NMR ensemble | Conformer selection criteria: LEAST RESTRAINT VIOLATION AND ENERGY Conformers calculated total number: 500 / Conformers submitted total number: 20 |