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Yorodumi- PDB-1kpt: STRUCTURE AND FUNCTION OF A VIRALLY ENCODED FUNGAL TOXIN FROM UST... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1kpt | ||||||
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Title | STRUCTURE AND FUNCTION OF A VIRALLY ENCODED FUNGAL TOXIN FROM USTILAGO MAYDIS: A FUNGAL AND MAMMALIAN CALCIUM CHANNEL INHIBITOR | ||||||
Components | KP4 TOXIN | ||||||
Keywords | TOXIN / KILLER TOXIN / VIRALLY ENCODED / SINGLE SUBUNIT / ALPHA/BETA FAMILY / LEFT-HANDED CROSSOVER / USTILAGO MAYDIS / FUNGAL TOXIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Ustilago maydis (fungus) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.75 Å | ||||||
Authors | Gu, F. / Smith, T. | ||||||
Citation | Journal: Structure / Year: 1995 Title: Structure and function of a virally encoded fungal toxin from Ustilago maydis: a fungal and mammalian Ca2+ channel inhibitor. Authors: Gu, F. / Khimani, A. / Rane, S.G. / Flurkey, W.H. / Bozarth, R.F. / Smith, T.J. #1: Journal: J.Mol.Biol. / Year: 1994 Title: The Characterization and Crystallization of a Virally Encoded Ustilago Maydis Kp4 Toxin Authors: Gu, F. / Sullivan, T. / Che, Z. / Ganesa, C. / Flurkey, W. / Bozarth, R. / Smith, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1kpt.cif.gz | 48.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1kpt.ent.gz | 39.3 KB | Display | PDB format |
PDBx/mmJSON format | 1kpt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1kpt_validation.pdf.gz | 412.8 KB | Display | wwPDB validaton report |
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Full document | 1kpt_full_validation.pdf.gz | 413.9 KB | Display | |
Data in XML | 1kpt_validation.xml.gz | 11.4 KB | Display | |
Data in CIF | 1kpt_validation.cif.gz | 15.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kp/1kpt ftp://data.pdbj.org/pub/pdb/validation_reports/kp/1kpt | 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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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-1, 0.0067, 0.0043), Vector: |
-Components
#1: Protein | Mass: 11067.370 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Details: SECRETED / Source: (natural) Ustilago maydis (fungus) / Strain: P4 STRAIN OF USTILAGO MAYDIS SUBSTRAIN M2B / References: UniProt: Q90121 #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: 2.02 Å3/Da / Density % sol: 39.01 % | ||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 Å |
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Detector | Type: RIGAKU RAXIS / Detector: IMAGE PLATE / Date: Feb 21, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→30 Å / Num. obs: 15905 / % possible obs: 88.7 % / Observed criterion σ(I): 3 / Redundancy: 3 % / Rmerge(I) obs: 0.052 |
Reflection | *PLUS % possible obs: 81.9 % / Redundancy: 3.42 % / Rmerge(I) obs: 0.052 |
-Processing
Software |
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Refinement | Resolution: 1.75→6 Å / σ(F): 2
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Displacement parameters | Biso mean: 16.82 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.75→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 1.9 Å / Rfactor obs: 0.186 / Rfactor Rfree: 0.237 / Rfactor Rwork: 0.186 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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