+Open data
-Basic information
Entry | Database: PDB / ID: 1wdc | ||||||
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Title | SCALLOP MYOSIN REGULATORY DOMAIN | ||||||
Components | (SCALLOP MYOSIN) x 3 | ||||||
Keywords | MUSCLE PROTEIN / MYOSIN / CALCIUM BINDING PROTEIN | ||||||
Function / homology | Function and homology information cytoskeletal motor regulator activity / mitotic actomyosin contractile ring / mitotic actomyosin contractile ring contraction / muscle myosin complex / myosin filament / actomyosin structure organization / myosin II complex / locomotion / sarcomere organization / microfilament motor activity ...cytoskeletal motor regulator activity / mitotic actomyosin contractile ring / mitotic actomyosin contractile ring contraction / muscle myosin complex / myosin filament / actomyosin structure organization / myosin II complex / locomotion / sarcomere organization / microfilament motor activity / myofibril / myosin heavy chain binding / mitotic cytokinesis / muscle contraction / post-embryonic development / actin filament binding / calmodulin binding / calcium ion binding / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | Argopecten irradians (bay scallop) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Houdusse, A. / Cohen, C. | ||||||
Citation | Journal: Structure / Year: 1996 Title: Structure of the regulatory domain of scallop myosin at 2 A resolution: implications for regulation. Authors: Houdusse, A. / Cohen, C. #1: Journal: Nature / Year: 1994 Title: Structure of the Regulatory Domain of Scallop Myosin at 2.8 A Resolution Authors: Xie, X. / Harrison, D.H. / Schlichting, I. / Sweet, R.M. / Kalabokis, V.N. / Szent-Gyorgyi, A.G. / Cohen, C. #2: Journal: Proc.Natl.Acad.Sci.USA / Year: 1990 Title: Isolation of the Regulatory Domain of Scallop Myosin: Role of the Essential Light Chain in Calcium Binding Authors: Kwon, H. / Goodwin, E.B. / Nyitray, L. / Berliner, E. / O'Neall-Hennessey, E. / Melandri, F.D. / Szent-Gyorgyi, A.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wdc.cif.gz | 90 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wdc.ent.gz | 67 KB | Display | PDB format |
PDBx/mmJSON format | 1wdc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1wdc_validation.pdf.gz | 382.2 KB | Display | wwPDB validaton report |
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Full document | 1wdc_full_validation.pdf.gz | 389.4 KB | Display | |
Data in XML | 1wdc_validation.xml.gz | 9 KB | Display | |
Data in CIF | 1wdc_validation.cif.gz | 14.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wd/1wdc ftp://data.pdbj.org/pub/pdb/validation_reports/wd/1wdc | HTTPS FTP |
-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
-Protein , 3 types, 3 molecules ABC
#1: Protein | Mass: 7997.623 Da / Num. of mol.: 1 / Fragment: PROTEOLYTIC FRAGMENT, REGULATORY DOMAIN / Source method: isolated from a natural source / Details: PH 7.0 / Source: (natural) Argopecten irradians (bay scallop) / Organ: SKELETAL / Tissue: SKELETAL MUSCLE / References: UniProt: P24733 |
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#2: Protein | Mass: 17560.855 Da / Num. of mol.: 1 / Fragment: PROTEOLYTIC FRAGMENT, REGULATORY DOMAIN / Source method: isolated from a natural source / Details: PH 7.0 / Source: (natural) Argopecten irradians (bay scallop) / Organ: SKELETAL / Tissue: SKELETAL MUSCLE / References: UniProt: P13543 |
#3: Protein | Mass: 17635.635 Da / Num. of mol.: 1 / Fragment: PROTEOLYTIC FRAGMENT, REGULATORY DOMAIN / Source method: isolated from a natural source / Details: PH 7.0 / Source: (natural) Argopecten irradians (bay scallop) / Organ: SKELETAL / Tissue: SKELETAL MUSCLE / References: UniProt: P07291 |
-Non-polymers , 3 types, 166 molecules
#4: Chemical | ChemComp-MG / |
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#5: Chemical | ChemComp-CA / |
#6: Water | ChemComp-HOH / |
-Details
Compound details | THE RD FRAGMENT IS A TERNARY COMPLEX OF A PORTION OF HEAVY CHAIN WITH TWO LIGHT CHAINS. CHAIN LABEL ...THE RD FRAGMENT IS A TERNARY COMPLEX OF A PORTION OF HEAVY CHAIN WITH TWO LIGHT CHAINS. CHAIN LABEL A DESIGNATES |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.68 Å3/Da / Density % sol: 51.9 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7 / Details: pH 7.0 | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion, hanging drop / Details: Xie, X., (1994) Nature, 368, 306. | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 277 K |
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Diffraction source | Wavelength: 1.5418 |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Oct 1, 1993 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.02→100 Å / Num. obs: 26715 / % possible obs: 89.2 % / Rmerge(I) obs: 0.061 |
Reflection | *PLUS Num. obs: 26725 / Num. measured all: 104023 |
-Processing
Software |
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Refinement | Resolution: 2→8 Å / σ(F): 2 Details: SIDE CHAIN ATOMS OF RESIDUE GLU B 153 ARE NOT SEEN IN THE ELECTRON DENSITY.
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Displacement parameters | Biso mean: 36.52 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_dihedral_angle_d / Dev ideal: 24.135 |