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Yorodumi- PDB-1pza: THE CRYSTAL STRUCTURES OF REDUCED PSEUDOAZURIN FROM ALCALIGENES F... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1pza | ||||||
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Title | THE CRYSTAL STRUCTURES OF REDUCED PSEUDOAZURIN FROM ALCALIGENES FAECALIS S-6 AT TWO PH VALUES | ||||||
Components | PSEUDOAZURIN | ||||||
Keywords | ELECTRON TRANSFER(CUPROPROTEIN) | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Alcaligenes faecalis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | ||||||
Authors | Petratos, K. | ||||||
Citation | Journal: FEBS Lett. / Year: 1994 Title: The crystal structures of reduced pseudoazurin from Alcaligenes faecalis S-6 at two pH values. Authors: Vakoufari, E. / Wilson, K.S. / Petratos, K. #1: Journal: Acta Crystallogr.,Sect.B / Year: 1988 Title: Refinement of the Structure of Pseudoazurin from Alcaligenes Faecalis S-6 at 1.55 Angstroms Resolution Authors: Petratos, K. / Dauter, Z. / Wilson, K.S. | ||||||
History |
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Remark 700 | SHEET THE NINE-STRANDED SHEET DESCRIBED BELOW IS ACTUALLY AN EIGHT-STRANDED BETA BARREL. THIS IS ...SHEET THE NINE-STRANDED SHEET DESCRIBED BELOW IS ACTUALLY AN EIGHT-STRANDED BETA BARREL. THIS IS DENOTED BY THE FIRST STRAND RECURRING AS THE LAST STRAND. STRAND 8 IS ADJACENT TO STRAND 9 (STRAND 1) BUT THERE ARE NO INTERSTRAND H-BONDS. THE SHEET PRESENTED AS *S1* ON SHEET RECORDS BELOW IS ACTUALLY AN EIGHT-STRANDED BETA-BARREL. THIS IS REPRESENTED BY A NINE-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pza.cif.gz | 37.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pza.ent.gz | 25.5 KB | Display | PDB format |
PDBx/mmJSON format | 1pza.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1pza_validation.pdf.gz | 420.2 KB | Display | wwPDB validaton report |
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Full document | 1pza_full_validation.pdf.gz | 422.1 KB | Display | |
Data in XML | 1pza_validation.xml.gz | 8.3 KB | Display | |
Data in CIF | 1pza_validation.cif.gz | 10.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pz/1pza ftp://data.pdbj.org/pub/pdb/validation_reports/pz/1pza | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO 20 2: THE TERMINAL NZ ATOM OF LYS 109 WAS REFINED AT TWO POSITIONS (DENOTED AS A AND B) EACH OF WHICH WAS ASSIGNED OCCUPANCY COEFFICIENT = 0.50. 3: WATER MOLECULES WITH NUMBERS: 33, 37, 57, 91 AND 92 WERE REFINED WITH OCCUPANCY COEFFICIENT SET TO 0.50. |
-Components
#1: Protein | Mass: 13383.511 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Alcaligenes faecalis (bacteria) / References: UniProt: P04377 |
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#2: Chemical | ChemComp-CU / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.66 Å3/Da / Density % sol: 53.75 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 8 / Method: vapor diffusion / Details: Petratos, K., (1987) FEBS Lett., 218, 209. | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 1.8 Å / Num. obs: 12660 / Num. measured all: 67800 / Rmerge(I) obs: 0.05 |
-Processing
Software |
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Refinement | Resolution: 1.8→10 Å / σ(F): 1 /
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Refinement step | Cycle: LAST / Resolution: 1.8→10 Å
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Software | *PLUS Name: SFALL/PROTIN/PROLSQ / Classification: refinement | |||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.178 | |||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 26.9 Å2 | |||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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