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Open data
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Basic information
Entry | Database: PDB / ID: 1h6g | ||||||
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Title | alpha-catenin M-domain | ||||||
![]() | ALPHA-1 CATENIN | ||||||
![]() | CELL ADHESION / ALPHA-CATENIN / ADHESION MODULATION / CYTOSKELETON | ||||||
Function / homology | ![]() negative regulation of integrin-mediated signaling pathway / CDH11 homotypic and heterotypic interactions / Regulation of CDH19 Expression and Function / Regulation of CDH11 function / gamma-catenin binding / epithelial cell-cell adhesion / zonula adherens / gap junction assembly / cellular response to indole-3-methanol / vinculin binding ...negative regulation of integrin-mediated signaling pathway / CDH11 homotypic and heterotypic interactions / Regulation of CDH19 Expression and Function / Regulation of CDH11 function / gamma-catenin binding / epithelial cell-cell adhesion / zonula adherens / gap junction assembly / cellular response to indole-3-methanol / vinculin binding / flotillin complex / negative regulation of cell motility / apical junction assembly / positive regulation of extrinsic apoptotic signaling pathway in absence of ligand / catenin complex / positive regulation of smoothened signaling pathway / Adherens junctions interactions / negative regulation of protein localization to nucleus / axon regeneration / negative regulation of neuroblast proliferation / establishment or maintenance of cell polarity / smoothened signaling pathway / Myogenesis / odontogenesis of dentin-containing tooth / intercalated disc / negative regulation of extrinsic apoptotic signaling pathway in absence of ligand / neuroblast proliferation / RHO GTPases activate IQGAPs / ovarian follicle development / extrinsic apoptotic signaling pathway in absence of ligand / acrosomal vesicle / VEGFR2 mediated vascular permeability / integrin-mediated signaling pathway / adherens junction / cell-cell adhesion / beta-catenin binding / actin filament binding / response to estrogen / male gonad development / cell junction / cell-cell junction / protein localization / actin cytoskeleton / cell migration / lamellipodium / cell adhesion / cadherin binding / intracellular membrane-bounded organelle / focal adhesion / structural molecule activity / RNA binding / identical protein binding / nucleus / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yang, J. / Dokurno, P. / Tonks, N.K. / Barford, D. | ||||||
![]() | ![]() Title: Crystal Structure of the M-Fragment of Alpha-Catenin: Implications for Modulation of Cell Adhesion. Authors: Yang, J. / Dokurno, P. / Tonks, N.K. / Barford, D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 111.9 KB | Display | ![]() |
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PDB format | ![]() | 91.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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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: 28880.719 Da / Num. of mol.: 2 / Fragment: M-FRAGMENT, RESIDUES 377-632 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-MPD / ( | #3: Chemical | #4: Chemical | ChemComp-CL / | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.43 Å3/Da / Density % sol: 49 % | ||||||||||||||||||||||||
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Crystal grow | pH: 4.6 Details: 30 % (V/V) MPD, 0.1 M SODIUM ACETETE BUFFER, PH 4.6, 20 MM CALCIUM CHLORIDE | ||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, hanging drop / Details: used microseeding | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC IMAGE PLATE / Detector: IMAGE PLATE / Date: Sep 8, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.488 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. obs: 27803 / % possible obs: 99.1 % / Redundancy: 6.2 % / Biso Wilson estimate: 28.6 Å2 / Rmerge(I) obs: 0.049 / Net I/σ(I): 13.3 |
Reflection shell | Resolution: 2.2→2.25 Å / Rmerge(I) obs: 0.205 / % possible all: 98.4 |
Reflection | *PLUS Num. measured all: 171946 |
Reflection shell | *PLUS % possible obs: 98.4 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 87.3308 Å2 / ksol: 0.330463 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 44.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→24.74 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.019 / Total num. of bins used: 6
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Xplor file |
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Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.29 / Rfactor Rwork: 0.21 |