+Open data
-Basic information
Entry | Database: PDB / ID: 2kzi | ||||||
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Title | Solution structure of the ZHER2 Affibody | ||||||
Components | Engineered protein, ZHER2 Affibody | ||||||
Keywords | PROTEIN BINDING / engineered protein | ||||||
Function / homology | Immunoglobulin FC, subunit C / Single alpha-helices involved in coiled-coils or other helix-helix interfaces / Up-down Bundle / Mainly Alpha Function and homology information | ||||||
Biological species | Staphylococcus aureus (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | arbitrary, model 1 | ||||||
Authors | Hard, T. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2010 Title: Structural basis for high-affinity HER2 receptor binding by an engineered protein. Authors: Eigenbrot, C. / Ultsch, M. / Dubnovitsky, A. / Abrahmsen, L. / Hard, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2kzi.cif.gz | 404.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2kzi.ent.gz | 338.6 KB | Display | PDB format |
PDBx/mmJSON format | 2kzi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2kzi_validation.pdf.gz | 334.9 KB | Display | wwPDB validaton report |
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Full document | 2kzi_full_validation.pdf.gz | 451.3 KB | Display | |
Data in XML | 2kzi_validation.xml.gz | 17.4 KB | Display | |
Data in CIF | 2kzi_validation.cif.gz | 30.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kz/2kzi ftp://data.pdbj.org/pub/pdb/validation_reports/kz/2kzi | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8147.125 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Staphylococcus aureus (bacteria) / Description: pET derived, T7 promoter / Production host: Escherichia coli (E. coli) |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1 mM [U-99% 13C; U-99% 15N] ZHER2 affibody-1, 95% H2O/5% D2O Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 1 mM / Component: ZHER2 affibody-1 / Isotopic labeling: [U-99% 13C; U-99% 15N] |
Sample conditions | Ionic strength: 0.18 / pH: 6 / Pressure: ambient / Temperature: 303 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 900 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | |||||||||||||||
NMR representative | Selection criteria: arbitrary | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 22 |