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Yorodumi- PDB-1j5i: Solution Structure of a Novel Chromoprotein Derived from Apo-Neoc... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1j5i | ||||||
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Title | Solution Structure of a Novel Chromoprotein Derived from Apo-Neocarzinostatin and a Synthetic Chromophore | ||||||
Components | PROTEIN (Apo-Neocarzinostatin) | ||||||
Keywords | ANTIBIOTIC / Beta sandwich / IgG fold / Chromophore / ligand | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Streptomyces carzinostaticus (bacteria) | ||||||
Method | SOLUTION NMR / Simulated annealing with torsion angle dynamics | ||||||
Authors | Urbaniak, M.D. / Muskett, F.W. / Finucane, M.D. / Caddick, S. / Woolfson, D.N. | ||||||
Citation | Journal: Biochemistry / Year: 2002 Title: Solution Structure of a Novel Chromoprotein Derived from Apo-Neocarzinostatin and a Synthetic Chromophore Authors: Urbaniak, M.D. / Muskett, F.W. / Finucane, M.D. / Caddick, S. / Woolfson, D.N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1j5i.cif.gz | 1.3 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1j5i.ent.gz | 1.1 MB | Display | PDB format |
PDBx/mmJSON format | 1j5i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/j5/1j5i ftp://data.pdbj.org/pub/pdb/validation_reports/j5/1j5i | HTTPS FTP |
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-Related structure data
Related structure data | 1j5hC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 12227.273 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptomyces carzinostaticus (bacteria) Plasmid: pCANTABB5 / Production host: Escherichia coli (E. coli) / References: UniProt: P0A3R9 |
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#2: Chemical | ChemComp-NCZ / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.0 mM u-15N 1, 1.0 mM 2, 25 mM phosphate pH 5.0, 0.1 mM TSP, 0.005% sodium azide w/v Solvent system: 80% H2O 10% D2O 10% d4-MeOH |
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Sample conditions | Ionic strength: 25 mM sodium phosphate / pH: 5.0 / Pressure: ambient / Temperature: 308 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: Simulated annealing with torsion angle dynamics / Software ordinal: 1 Details: RESTRAINTS FOR STRUCTURE CALCULATION: INTERMOLECULAR NOES 20, INTRARESIDUE NOES 173, SEQUENTIAL NOES (I, I + 1) 227, MEDIUM-RANGE NOES (I, I+2 - I+4) 115, LONG-RANGE NOES (I, I>5) 295, PSI ...Details: RESTRAINTS FOR STRUCTURE CALCULATION: INTERMOLECULAR NOES 20, INTRARESIDUE NOES 173, SEQUENTIAL NOES (I, I + 1) 227, MEDIUM-RANGE NOES (I, I+2 - I+4) 115, LONG-RANGE NOES (I, I>5) 295, PSI ANGLE RESTRAINTS 39, HYDROGEN BONDS 74, DISULPHIDE BONDS 12. | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with favorable non-bond energy Conformers calculated total number: 100 / Conformers submitted total number: 44 |