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Open data
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Basic information
Entry | Database: PDB / ID: 1zuf | ||||||
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Title | Solution Structure of DLP-4 | ||||||
![]() | Defensin-like peptide 2/4 | ||||||
![]() | TOXIN / helix / antiparallel beta-sheet | ||||||
Function / homology | ![]() | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing, molecular dynamics, torsion angle dynamics | ||||||
![]() | Torres, A.M. / Tsampazi, C. / Geraghty, D.P. / Bansal, P.S. / Alewood, P.F. / Kuchel, P.W. | ||||||
![]() | ![]() Title: D-amino acid residue in a defensin-like peptide from platypus venom: effect on structure and chromatographic properties. Authors: Torres, A.M. / Tsampazi, C. / Geraghty, D.P. / Bansal, P.S. / Alewood, P.F. / Kuchel, P.W. #1: ![]() Title: Defensin-like peptide-2 from platypus venom: member of a class of peptides with a distinct structural fold Authors: Torres, A.M. / de Plater, G.M. / Doverskog, M. / Birinyi-Strachan, L.C. / Nicholson, G.M. / Gallagher, C.H. / Kuchel, P.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 264.7 KB | Display | ![]() |
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PDB format | ![]() | 227.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 343.5 KB | Display | ![]() |
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Full document | ![]() | 458.8 KB | Display | |
Data in XML | ![]() | 13.9 KB | Display | |
Data in CIF | ![]() | 22.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 |
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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 5121.899 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: chemically synthesized / References: UniProt: P82140 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: 2D NOESY |
NMR details | Text: This structure was determined using standard 2D homonuclear techniques |
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Sample preparation
Details | Contents: 1mM DLP-4 / Solvent system: 90% H2O/10% D2O |
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Sample conditions | pH: 3.4 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing, molecular dynamics, torsion angle dynamics Software ordinal: 1 Details: The structures are based on a total of 451 restraints, 432 are NOE-derived distance constraints, 7 dihedral angle restraints, 12 distance restraints from hydrogen bonds. | ||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 500 / Conformers submitted total number: 20 |