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Open data
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Basic information
Entry | Database: PDB / ID: 1swt | ||||||
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Title | CORE-STREPTAVIDIN MUTANT D128A IN COMPLEX WITH BIOTIN AT PH 4.5 | ||||||
![]() | PROTEIN (STREPTAVIDIN) | ||||||
![]() | BINDING PROTEIN / BIOTIN BINDING PROTEIN | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Freitag, S. / Le Trong, I. / Chu, V. / Klumb, L.A. / Stayton, P.S. / Stenkamp, R.E. | ||||||
![]() | ![]() Title: A structural snapshot of an intermediate on the streptavidin-biotin dissociation pathway. Authors: Freitag, S. / Chu, V. / Penzotti, J.E. / Klumb, L.A. / To, R. / Hyre, D. / Le Trong, I. / Lybrand, T.P. / Stenkamp, R.E. / Stayton, P.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 59.5 KB | Display | ![]() |
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PDB format | ![]() | 43 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 445.8 KB | Display | ![]() |
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Full document | ![]() | 447.8 KB | Display | |
Data in XML | ![]() | 12.4 KB | Display | |
Data in CIF | ![]() | 16.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1swsC ![]() 1swaS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given / Matrix: (1), |
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Components
#1: Protein | Mass: 13237.326 Da / Num. of mol.: 2 / Mutation: D128A Source method: isolated from a genetically manipulated source Details: PH 4.5 / Source: (gene. exp.) ![]() Description: T7 EXPRESSION SYSTEM (PET-210, NOVAGEN, INC., MADISON,WI. SYNTHETIC GENE) Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.84 % | |||||||||||||||
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Crystal grow | pH: 4.5 Details: INCUBATED IN 2.5 M BIOTIN/HOH, COCRYSTALLIZED IN 52% MPD (PH 4.5) | |||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, sitting drop | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: ![]() |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Nov 20, 1996 |
Radiation | Monochromator: GRAPHITE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. obs: 14716 / % possible obs: 88 % / Observed criterion σ(I): 1 / Redundancy: 3 % / Rmerge(I) obs: 0.054 / Net I/σ(I): 7 |
Reflection shell | Resolution: 2→2.1 Å / Mean I/σ(I) obs: 1 / % possible all: 43 |
Reflection | *PLUS % possible obs: 88 % / Num. measured all: 39212 |
Reflection shell | *PLUS % possible obs: 43 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1SWA Resolution: 2→10 Å / Num. parameters: 7549 / Num. restraintsaints: 7497 / Cross valid method: RFREE / σ(F): 0 / Stereochemistry target values: ENGH AND HUBER
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Refine analyze | Num. disordered residues: 0 / Occupancy sum hydrogen: 1675 / Occupancy sum non hydrogen: 1886.5 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→10 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 10 Å / σ(F): 4 / % reflection Rfree: 10 % / Rfactor obs: 0.156 / Rfactor Rwork: 0.209 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 31 Å2 |