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Yorodumi- PDB-1mzt: NMR structure of the fd bacteriophage pVIII coat protein in lipid... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1mzt | ||||||
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Title | NMR structure of the fd bacteriophage pVIII coat protein in lipid bilayer membranes | ||||||
Components | major coat protein pVIII | ||||||
Keywords | VIRAL PROTEIN / fd coat protein / membrane-bound / pVIII | ||||||
Function / homology | Phage major coat protein, Gp8 / Bacteriophage M13, G8P, capsid domain superfamily / Capsid protein G8P / helical viral capsid / host cell membrane / membrane / Capsid protein G8P Function and homology information | ||||||
Biological species | Enterobacteria phage fd (virus) | ||||||
Method | SOLID-STATE NMR / Calculation of bond orientations, dihedral angles from solid-state NMR restraints, back-calculation of NMR data from oriented structure | ||||||
Authors | Marassi, F.M. / Opella, S.J. | ||||||
Citation | Journal: Protein Sci. / Year: 2003 Title: Simultaneous assignment and structure determination of a membrane protein from NMR orientational restraints Authors: Marassi, F.M. / Opella, S.J. #1: Journal: J.Biomol.NMR / Year: 2002 Title: Using Pisa pies to resolve ambiguities in angular constraints from PISEMA spectra of aligned proteins Authors: Marassi, F.M. / Opella, S.J. | ||||||
History |
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Remark 999 | SEQUENCE AUTHOR PROVIDED COORDINATES FOR THE PROTEIN BACKBONE ONLY. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1mzt.cif.gz | 14.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1mzt.ent.gz | 6.2 KB | Display | PDB format |
PDBx/mmJSON format | 1mzt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1mzt_validation.pdf.gz | 244.6 KB | Display | wwPDB validaton report |
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Full document | 1mzt_full_validation.pdf.gz | 244.4 KB | Display | |
Data in XML | 1mzt_validation.xml.gz | 2.1 KB | Display | |
Data in CIF | 1mzt_validation.cif.gz | 2.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mz/1mzt ftp://data.pdbj.org/pub/pdb/validation_reports/mz/1mzt | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 5244.000 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Enterobacteria phage fd (virus) / Genus: Inovirus / Species: Enterobacteria phage M13 / References: UniProt: P69539 |
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-Experimental details
-Experiment
Experiment | Method: SOLID-STATE NMR |
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NMR experiment | Type: 1H/15N PISEMA |
NMR details | Text: The structure was determined from one uniformly and four selectively 15N-labeled samples. |
-Sample preparation
Details | Contents: 8 mg 15N-labeled fd coat protein, 64 mg POPC, 16 mg POPG, lipid bilayers oriented on glass slides Solvent system: Lipid bilayers hydrated in water |
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Sample conditions | Ionic strength: 0 / pH: 7 / Pressure: ambient / Temperature: 296 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Chemagnetics CMX / Manufacturer: Chemagnetics / Model: CMX / Field strength: 400 MHz |
-Processing
NMR software |
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Refinement | Method: Calculation of bond orientations, dihedral angles from solid-state NMR restraints, back-calculation of NMR data from oriented structure Software ordinal: 1 Details: Structure calculated from 40 chemical shift and 40 dipolar coupling restraints | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 6 / Conformers submitted total number: 1 |