+Open data
-Basic information
Entry | Database: PDB / ID: 1swe | ||||||
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Title | APO-CORE-STREPTAVIDIN IN COMPLEX WITH BIOTIN AT PH 4.5 | ||||||
Components | STREPTAVIDIN | ||||||
Keywords | BIOTIN-BINDING PROTEIN / BIOTIN BINDING PROTEIN / BIOTIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Streptomyces avidinii (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.06 Å | ||||||
Authors | Freitag, S. / Le Trong, I. / Klumb, L. / Stayton, P.S. / Stenkamp, R.E. | ||||||
Citation | Journal: Protein Sci. / Year: 1997 Title: Structural studies of the streptavidin binding loop. Authors: Freitag, S. / Le Trong, I. / Klumb, L. / Stayton, P.S. / Stenkamp, R.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1swe.cif.gz | 106.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1swe.ent.gz | 82.2 KB | Display | PDB format |
PDBx/mmJSON format | 1swe.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1swe_validation.pdf.gz | 460.2 KB | Display | wwPDB validaton report |
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Full document | 1swe_full_validation.pdf.gz | 468.2 KB | Display | |
Data in XML | 1swe_validation.xml.gz | 24 KB | Display | |
Data in CIF | 1swe_validation.cif.gz | 33 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sw/1swe ftp://data.pdbj.org/pub/pdb/validation_reports/sw/1swe | HTTPS FTP |
-Related structure data
Related structure data | 1swaSC 1swbC 1swcC 1swdC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 13281.336 Da / Num. of mol.: 4 / Fragment: CORE, RESIDUES 13 - 139 Source method: isolated from a genetically manipulated source Details: PH 4.5, COMPLEXED WITH BIOTIN / Source: (gene. exp.) Streptomyces avidinii (bacteria) / Production host: Escherichia coli (E. coli) / References: UniProt: P22629 #2: Chemical | ChemComp-BTN / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.39 Å3/Da / Density % sol: 48.48 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 4.5 Details: PROTEIN-BIOTIN COMPLEX WAS CO-CRYSTALLIZED FROM 50% MPD (2-METHYL-PENTANE-2,4-DIOLE, PH 4.5) WITH 2.5M EXCESS OF BIOTIN | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Feb 13, 1996 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. obs: 24738 / % possible obs: 83 % / Redundancy: 11 % / Rmerge(I) obs: 0.066 / Net I/σ(I): 9 |
Reflection shell | Resolution: 2.1→2.2 Å / Rmerge(I) obs: 0.192 / Mean I/σ(I) obs: 3.4 / % possible all: 42 |
Reflection shell | *PLUS % possible obs: 42 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1SWA Resolution: 2.06→8 Å / Num. parameters: 15579 / Num. restraintsaints: 15139 / Stereochemistry target values: ENGH AND HUBER
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Solvent computation | Solvent model: MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201 | |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 0 / Occupancy sum hydrogen: 3355 / Occupancy sum non hydrogen: 3891 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.06→8 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-96 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rwork: 0.161 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: s_plane_restr / Dev ideal: 0.017 |