+Open data
-Basic information
Entry | Database: PDB / ID: 1ttr | ||||||
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Title | TRANSTHYRETIN-V/122/I CARDIOMYOPATHIC MUTANT | ||||||
Components | TRANSTHYRETIN | ||||||
Keywords | TRANSPORT (THYROXINE) / ALBUMIN / RETINOL-BINDING / VITAMIN A | ||||||
Function / homology | Function and homology information Retinoid cycle disease events / thyroid hormone binding / The canonical retinoid cycle in rods (twilight vision) / Non-integrin membrane-ECM interactions / purine nucleobase metabolic process / Retinoid metabolism and transport / hormone activity / azurophil granule lumen / Amyloid fiber formation / Neutrophil degranulation ...Retinoid cycle disease events / thyroid hormone binding / The canonical retinoid cycle in rods (twilight vision) / Non-integrin membrane-ECM interactions / purine nucleobase metabolic process / Retinoid metabolism and transport / hormone activity / azurophil granule lumen / Amyloid fiber formation / Neutrophil degranulation / extracellular space / extracellular exosome / extracellular region / identical protein binding Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Damas, A.M. / Lamzin, V.S. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1996 Title: Structure of the Val122Ile variant transthyretin - a cardiomyopathic mutant. Authors: Damas, A.M. / Ribeiro, S. / Lamzin, V.S. / Palha, J.A. / Saraiva, M.J. #1: Journal: J.Biol.Chem. / Year: 1993 Title: The X-Ray Crystal Structure Refinements of Normal Human Transthyretin and the Amyloidogenic Val-30-->met Variant to 1.7-A Resolution Authors: Hamilton, J.A. / Steinrauf, L.K. / Braden, B.C. / Liepnieks, J. / Benson, M.D. / Holmgren, G. / Sandgren, O. / Steen, L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ttr.cif.gz | 59.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ttr.ent.gz | 44.8 KB | Display | PDB format |
PDBx/mmJSON format | 1ttr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tt/1ttr ftp://data.pdbj.org/pub/pdb/validation_reports/tt/1ttr | 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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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 13791.387 Da / Num. of mol.: 2 / Mutation: V122I Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: PLASMA PROTEIN / Production host: Escherichia coli (E. coli) / References: UniProt: P02766 #2: 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: 2.2 Å3/Da / Density % sol: 44 % Description: OTHER SOFTWARE USED TO DETERMINE STRUCTURE: ARP | ||||||||||||||||||||
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Crystal grow | pH: 5.3 / Details: pH 5.3 | ||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 287 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 1 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 15, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→10 Å / Num. obs: 19566 / % possible obs: 96 % / Rmerge(I) obs: 0.072 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: WILD TYPE TRANSTHYRETIN Resolution: 1.9→10 Å / σ(F): 0 /
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Displacement parameters | Biso mean: 25 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati sigma a obs: 0.18 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→10 Å
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Refine LS restraints |
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Software | *PLUS Name: CCP4 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.158 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |