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- PDB-1e9t: High resolution solution structure of human intestinal trefoil factor -
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Open data
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Basic information
Entry | Database: PDB / ID: 1e9t | ||||||
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Title | High resolution solution structure of human intestinal trefoil factor | ||||||
![]() | INTESTINAL TREFOIL FACTOR | ||||||
![]() | CELL MOTILITY FACTOR / INTESTINAL TREFOIL FACTOR / SOLUTION STRUCTURE / TREFOIL DOMAIN / NMR SPECTROSCOPY | ||||||
Function / homology | ![]() maintenance of gastrointestinal epithelium / regulation of glucose metabolic process / secretory granule / Estrogen-dependent gene expression / extracellular space / extracellular region / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | SOLUTION NMR / SIMULATED ANNEALING, TORSION ANGLE DYNAMICS | ||||||
![]() | Lemercinier, X. / Muskett, F. / Cheeseman, B. / McIntosh, P. / Carr, M. | ||||||
![]() | ![]() Title: High-Resolution Solution Structure of Human Intestinal Trefoil Factor and Functional Insights from Detailed Structural Comparisons with the Other Members of the Trefoil Family of Mammalian Cell Motility Factors Authors: Lemercinier, X. / Muskett, F.W. / Cheeseman, B. / Mcintosh, P.B. / Thim, L. / Carr, M.D. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: SEQUENTIAL AND MEDIUM-RANGE NOE PATTERN, AND KABSCH AND SANDER ... HELIX DETERMINATION METHOD: SEQUENTIAL AND MEDIUM-RANGE NOE PATTERN, AND KABSCH AND SANDER ALGORITHM IN MOLMOL | ||||||
Remark 700 | SHEET DETERMINATION METHOD: PATTERN OF SEQUENTIAL AND LONG-RANGE NOES |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 1.4 MB | Display | ![]() |
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PDB format | ![]() | 1.2 MB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 499.3 KB | Display | ![]() |
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Full document | ![]() | 1.7 MB | Display | |
Data in XML | ![]() | 320.2 KB | Display | |
Data in CIF | ![]() | 273.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein | Mass: 6587.457 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Description: RECOMBINANT HITF PRODUCED IN A YEAST EXPRESSION VECTOR. Plasmid: PHW 1066 / Production host: ![]() ![]() |
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Compound details | THE PROTEIN CONTAINS A 21 RESIDUE SIGNAL SEQUENCE MAY HAVE A ROLE IN PROMOTING CELL MIGRATION. |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: THE STRUCTURE WAS DETERMINED FROM 2D 1H NMR DATA ACQUIRED FROM SAMPLES OF HITF |
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Sample preparation
Sample conditions | Ionic strength: 25 MM POTASSIUM PHOSPHATE AND 100 MM POTASSIUM CHLORIDE pH: 6.0 / Pressure: 1 atm / Temperature: 308 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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Processing
NMR software |
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Refinement | Method: SIMULATED ANNEALING, TORSION ANGLE DYNAMICS / Software ordinal: 1 Details: AFTER THE FINAL DYANA CALCULATIONS, 85 SATISFACTORILY CONVERGED HITF STRUCTURES WERE OBTAINED FROM 100 RANDOM STARTING CONFORMATIONS. THE CONVERGED STRUCTURES CONTAIN NO DISTANCE CONSTRAINT ...Details: AFTER THE FINAL DYANA CALCULATIONS, 85 SATISFACTORILY CONVERGED HITF STRUCTURES WERE OBTAINED FROM 100 RANDOM STARTING CONFORMATIONS. THE CONVERGED STRUCTURES CONTAIN NO DISTANCE CONSTRAINT OR VAN DER WAALS VIOLATIONS GREATER THAN 0.5 A AND NO DIHEDRAL ANGLE VIOLATIONS GREATER THAN 5 DEGREES, WITH AN AVERAGE VALUE FOR THE DYANA TARGET FUNCTION OF 4.33. | ||||||||||||
NMR ensemble | Conformer selection criteria: CONSISTENCY WITH THE NMR STRUCTURAL DATA Conformers calculated total number: 100 / Conformers submitted total number: 85 |