+Open data
-Basic information
Entry | Database: PDB / ID: 1pdx | ||||||
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Title | PUTIDAREDOXIN | ||||||
Components | PROTEIN (PUTIDAREDOXIN) | ||||||
Keywords | ELECTRON TRANSFER / CYTOCHROME P450CAM / FERREDOXIN / IRON-SULFUR CLUSTER | ||||||
Function / homology | Function and homology information P450-containing electron transport chain / 2 iron, 2 sulfur cluster binding / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | Pseudomonas putida (bacteria) | ||||||
Method | SOLUTION NMR / DG,SA | ||||||
Authors | Pochapsky, T.C. / Jain, N.U. / Kuti, M. / Lyons, T.A. / Heymont, J. | ||||||
Citation | Journal: Biochemistry / Year: 1999 Title: A refined model for the solution structure of oxidized putidaredoxin. Authors: Pochapsky, T.C. / Jain, N.U. / Kuti, M. / Lyons, T.A. / Heymont, J. #1: Journal: Structure / Year: 1998 Title: New aspects of electron transfer revealed by the crystal structure of a truncated bovine adrenodoxin, Adx(4-108). Authors: Muller, A. / Muller, J.J. / Muller, Y.A. / Uhlmann, H. / Bernhardt, R. / Heinemann, U. #2: Journal: Biochemistry / Year: 1994 Title: An NMR-derived model for the solution structure of oxidized putidaredoxin, a 2-Fe, 2-S ferredoxin from Pseudomonas. Authors: Pochapsky, T.C. / Ye, X.M. / Ratnaswamy, G. / Lyons, T.A. #3: Journal: Biochemistry / Year: 1994 Title: Redox-dependent 1H NMR spectral features and tertiary structural constraints on the C-terminal region of putidaredoxin. Authors: Pochapsky, T.C. / Ratnaswamy, G. / Patera, A. #4: Journal: Magn.Reson.Chem. / Year: 1993 Title: Characterization of hyperfine-shifted 1H resonances in oxidized and reduced putidaredoxin, an Fe2S2 ferredoxin from Pseudomonas putida Authors: Ratnaswamy, G. / Pochapsky, T.C. #5: Journal: Biochemistry / Year: 1992 Title: 1H NMR sequential assignments and identification of secondary structural elements in oxidized putidaredoxin, an electron-transfer protein from Pseudomonas. Authors: Ye, X.M. / Pochapsky, T.C. / Pochapsky, S.S. #6: Journal: Biochemistry / Year: 1991 Title: 1H NMR identification of a beta-sheet structure and description of folding topology in putidaredoxin. Authors: Pochapsky, T.C. / Ye, X.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pdx.cif.gz | 434.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pdx.ent.gz | 358.4 KB | Display | PDB format |
PDBx/mmJSON format | 1pdx.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1pdx_validation.pdf.gz | 379.8 KB | Display | wwPDB validaton report |
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Full document | 1pdx_full_validation.pdf.gz | 552.3 KB | Display | |
Data in XML | 1pdx_validation.xml.gz | 83.3 KB | Display | |
Data in CIF | 1pdx_validation.cif.gz | 110.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pd/1pdx ftp://data.pdbj.org/pub/pdb/validation_reports/pd/1pdx | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11428.911 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: 2FE-2S CLUSTER LIGATED BY CYS 39, CYS 45, CYS 48 AND CYS 86 Source: (gene. exp.) Pseudomonas putida (bacteria) Description: ORIGINALLY ISOLATED FROM P. PUTIDA GROWN WITH CAMPHOR AS SOLE CARBON SOURCE Plasmid: PKM536 / Gene (production host): CAMB / Production host: Escherichia coli (E. coli) / Strain (production host): TB1 / References: UniProt: P00259 |
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#2: Chemical | ChemComp-FES / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR SPECTROSCOPY ON 13C, 15N-LABELED PUTIDAREDOXIN |
-Sample preparation
Sample conditions | pH: 7.4 / Pressure: 1 atm / Temperature: 290 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker AMX / Manufacturer: Bruker / Model: AMX / Field strength: 500 MHz |
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-Processing
NMR software |
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Refinement | Method: DG,SA / Software ordinal: 1 | ||||||||||||||||
NMR ensemble | Conformer selection criteria: NO NOE VIOL.>0.5 A, NO DIHEDRAL VIOLATION > 5 DEG. Conformers calculated total number: 80 / Conformers submitted total number: 14 |