+Open data
-Basic information
Entry | Database: PDB / ID: 1pbk | ||||||
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Title | HOMOLOGOUS DOMAIN OF HUMAN FKBP25 | ||||||
Components | FKBP25 | ||||||
Keywords | ISOMERASE / FKBP12 HOMOLOGOUS DOMAIN OF HFKBP25 | ||||||
Function / homology | Function and homology information FK506 binding / peptidylprolyl isomerase / peptidyl-prolyl cis-trans isomerase activity / signaling receptor activity / RNA binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | ||||||
Authors | Liang, J. / Hung, D.T. / Schreiber, S.L. / Clardy, J. | ||||||
Citation | Journal: J.Am.Chem.Soc. / Year: 1996 Title: Structure of the human 25 kDa FK506 binding protein complexed with rapamycin. Authors: Liang, J. / Hung, D.T. / Schreiber, S.L. / Clardy, J. #1: Journal: J.Am.Chem.Soc. / Year: 1991 Title: Atomic Structure of the Rapamycin Human Immunophilin Fkbp-12 Complex Authors: Van Duyne, G.D. / Standaert, R.F. / Karplus, P.A. / Schreiber, S.L. / Clardy, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pbk.cif.gz | 45.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pbk.ent.gz | 31.7 KB | Display | PDB format |
PDBx/mmJSON format | 1pbk.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pb/1pbk ftp://data.pdbj.org/pub/pdb/validation_reports/pb/1pbk | 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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Unit cell |
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-Components
#1: Protein | Mass: 12959.964 Da / Num. of mol.: 1 Fragment: FKBP12 HOMOLOGOUS DOMAIN, RESIDUES PRO 109 - ASP 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line: BL21(DE3) / Gene: HUMAN HIPPOCAMPAL CDNA LIBRARY / Plasmid: PGEX-3X Gene (production host): HUMAN HIPPOCAMPAL CDNA LIBRARY (CLONTECH, PALO ALTO,CA) Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) (NOVAGEN) / References: UniProt: Q00688 |
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#2: Chemical | ChemComp-RAP / |
#3: Water | ChemComp-HOH / |
Compound details | RECOMBINANT HFKBP25 IS AN UNSTABLE PROTEIN AND DEGRADED RAPIDLY FOLLOWING THE PURIFICATION. WITH ...RECOMBINAN |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.96 Å3/Da / Density % sol: 63 % | |||||||||||||||
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Crystal grow | *PLUS pH: 8.1 / Method: vapor diffusion, hanging drop | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: XUONG-HAMLIN MULTIWIRE / Detector: AREA DETECTOR / Date: Dec 28, 1993 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→8 Å / Num. obs: 7539 / % possible obs: 99 % / Observed criterion σ(I): 2 / Redundancy: 4 % / Rmerge(I) obs: 0.065 |
Reflection | *PLUS Lowest resolution: 100 Å / Num. obs: 7520 / % possible obs: 98.1 % / Num. measured all: 24730 |
Reflection shell | *PLUS Highest resolution: 2.5 Å / Lowest resolution: 2.6 Å / % possible obs: 99.4 % / Rmerge(I) obs: 0.285 / Mean I/σ(I) obs: 3.5 |
-Processing
Software |
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Refinement | Resolution: 2.5→8 Å / σ(F): 2
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Displacement parameters | Biso mean: 21.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→8 Å
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Refine LS restraints |
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Xplor file |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection obs: 7334 / Rfactor obs: 0.191 / Rfactor Rfree: 0.244 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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