[English] 日本語
Yorodumi- PDB-1hlu: STRUCTURE OF BOVINE BETA-ACTIN-PROFILIN COMPLEX WITH ACTIN BOUND ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1hlu | ||||||
---|---|---|---|---|---|---|---|
Title | STRUCTURE OF BOVINE BETA-ACTIN-PROFILIN COMPLEX WITH ACTIN BOUND ATP PHOSPHATES SOLVENT ACCESSIBLE | ||||||
Components |
| ||||||
Keywords | COMPLEX (ACETYLATION/ACTIN-BINDING) / COMPLEX (ACETYLATION-ACTIN-BINDING) / ACTIN / PROFILIN / CONFORMATIONAL CHANGES / CYTOSKELETON / COMPLEX (ACETYLATION-ACTIN-BINDING) complex | ||||||
Function / homology | Function and homology information PCP/CE pathway / Adherens junctions interactions / Cell-extracellular matrix interactions / B-WICH complex positively regulates rRNA expression / Gap junction degradation / Formation of annular gap junctions / MAP2K and MAPK activation / RHOF GTPase cycle / EPHB-mediated forward signaling / Regulation of actin dynamics for phagocytic cup formation ...PCP/CE pathway / Adherens junctions interactions / Cell-extracellular matrix interactions / B-WICH complex positively regulates rRNA expression / Gap junction degradation / Formation of annular gap junctions / MAP2K and MAPK activation / RHOF GTPase cycle / EPHB-mediated forward signaling / Regulation of actin dynamics for phagocytic cup formation / RHO GTPases Activate WASPs and WAVEs / RHO GTPases activate IQGAPs / RHO GTPases Activate Formins / DNA Damage Recognition in GG-NER / UCH proteinases / VEGFA-VEGFR2 Pathway / structural constituent of postsynaptic actin cytoskeleton / positive regulation of actin filament bundle assembly / dense body / regulation of actin filament polymerization / Clathrin-mediated endocytosis / NuA4 histone acetyltransferase complex / axonogenesis / actin filament / cell motility / Hydrolases; Acting on acid anhydrides; Acting on acid anhydrides to facilitate cellular and subcellular movement / actin cytoskeleton / actin binding / actin cytoskeleton organization / cytoskeleton / hydrolase activity / axon / focal adhesion / synapse / protein kinase binding / protein-containing complex / ATP binding / membrane / nucleus / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Bos taurus (cattle) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.65 Å | ||||||
Authors | Chik, J.K. / Lindberg, U. / Schutt, C.E. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1996 Title: The structure of an open state of beta-actin at 2.65 A resolution. Authors: Chik, J.K. / Lindberg, U. / Schutt, C.E. #1: Journal: J.Mol.Biol. / Year: 1994 Title: Crystallization and Structure Determination of Bovine Profilin at 2.0 A Resolution Authors: Cedergren-Zeppezauer, E.S. / Goonesekere, N.C. / Rozycki, M.D. / Myslik, J.C. / Dauter, Z. / Lindberg, U. / Schutt, C.E. #2: Journal: Nature / Year: 1993 Title: The Structure of Crystalline Profilin-Beta-Actin Authors: Schutt, C.E. / Myslik, J.C. / Rozycki, M.D. / Goonesekere, N.C. / Lindberg, U. #3: Journal: J.Mol.Biol. / Year: 1989 Title: Molecular Packing in Profilin: Actin Crystals and its Implications Authors: Schutt, C.E. / Lindberg, U. / Myslik, J. / Strauss, N. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1hlu.cif.gz | 110.4 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1hlu.ent.gz | 87.2 KB | Display | PDB format |
PDBx/mmJSON format | 1hlu.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1hlu_validation.pdf.gz | 467.4 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1hlu_full_validation.pdf.gz | 493.1 KB | Display | |
Data in XML | 1hlu_validation.xml.gz | 15.3 KB | Display | |
Data in CIF | 1hlu_validation.cif.gz | 21.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hl/1hlu ftp://data.pdbj.org/pub/pdb/validation_reports/hl/1hlu | HTTPS FTP |
-Related structure data
Related structure data | 2btfS S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 41690.520 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Bos taurus (cattle) / Organ: THYMUS / References: UniProt: P60712 |
---|---|
#2: Protein | Mass: 14968.185 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Bos taurus (cattle) / Organ: THYMUS / References: UniProt: P02584 |
#3: Chemical | ChemComp-CA / |
#4: Chemical | ChemComp-ATP / |
Compound details | THIS COMPLEX CONTAINS PROFILIN BOUND TO BETA-ACTIN (NONMUSCLE ISOFORM OF ACTIN). THE COMPLEX ...THIS COMPLEX CONTAINS PROFILIN BOUND TO BETA-ACTIN (NONMUSCLE ISOFORM OF ACTIN). THE COMPLEX REPRESENTE |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 6 |
---|
-Sample preparation
Crystal | Density Matthews: 2.26 Å3/Da / Density % sol: 45.5 % |
---|---|
Crystal grow | pH: 7.5 / Details: pH 7.5 |
Crystal grow | *PLUS Method: other / Details: Rozycki, M.D., (1991) Methods Enzymol., 196, 100. |
-Data collection
Diffraction | Mean temperature: 288 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12C / Wavelength: 1.1 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE AREA DETECTOR / Date: Jun 1, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 2.65→50 Å / Num. obs: 13869 / % possible obs: 87.3 % / Rmerge(I) obs: 0.082 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 2.65→2.7 Å / Rmerge(I) obs: 0.267 / Mean I/σ(I) obs: 2.4 / % possible all: 69 |
Reflection shell | *PLUS % possible obs: 69 % / Num. unique obs: 533 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2BTF Resolution: 2.65→8 Å / σ(F): 2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.65→8 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.33 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 17.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | *PLUS Highest resolution: 2.65 Å / Lowest resolution: 2.77 Å / Num. reflection obs: 1165 |