+Open data
-Basic information
Entry | Database: PDB / ID: 1oxo | ||||||
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Title | ASPARTATE AMINOTRANSFERASE, H-ASP COMPLEX, OPEN CONFORMATION | ||||||
Components | ASPARTATE AMINOTRANSFERASE | ||||||
Keywords | AMINOTRANSFERASE / VITAMIN B6 / HYDROXYLAMINE DERIVED INHIBITORS | ||||||
Function / homology | Function and homology information Amino acid metabolism / Gluconeogenesis / aspartate catabolic process / kynurenine-oxoglutarate transaminase / kynurenine-oxoglutarate transaminase activity / aspartate metabolic process / glutamate metabolic process / 2-oxoglutarate metabolic process / aspartate transaminase / L-aspartate:2-oxoglutarate aminotransferase activity ...Amino acid metabolism / Gluconeogenesis / aspartate catabolic process / kynurenine-oxoglutarate transaminase / kynurenine-oxoglutarate transaminase activity / aspartate metabolic process / glutamate metabolic process / 2-oxoglutarate metabolic process / aspartate transaminase / L-aspartate:2-oxoglutarate aminotransferase activity / biosynthetic process / pyridoxal phosphate binding / mitochondrial matrix / protein homodimerization activity / mitochondrion Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.3 Å | ||||||
Authors | Hohenester, E. / Schirmer, T. / Jansonius, J.N. | ||||||
Citation | Journal: Eur.J.Biochem. / Year: 1996 Title: Crystal structures and solution studies of oxime adducts of mitochondrial aspartate aminotransferase. Authors: Markovic-Housley, Z. / Schirmer, T. / Hohenester, E. / Khomutov, A.R. / Khomutov, R.M. / Karpeisky, M.Y. / Sandmeier, E. / Christen, P. / Jansonius, J.N. #1: Journal: J.Mol.Biol. / Year: 1992 Title: X-Ray Structure Refinement and Comparison of Three Forms of Mitochondrial Aspartate Aminotransferase Authors: Mcphalen, C.A. / Vincent, M.G. / Jansonius, J.N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1oxo.cif.gz | 180.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1oxo.ent.gz | 141.2 KB | Display | PDB format |
PDBx/mmJSON format | 1oxo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1oxo_validation.pdf.gz | 497.6 KB | Display | wwPDB validaton report |
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Full document | 1oxo_full_validation.pdf.gz | 520.9 KB | Display | |
Data in XML | 1oxo_validation.xml.gz | 20.6 KB | Display | |
Data in CIF | 1oxo_validation.cif.gz | 32.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ox/1oxo ftp://data.pdbj.org/pub/pdb/validation_reports/ox/1oxo | HTTPS FTP |
-Related structure data
-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: (-0.92544, 0.34253, -0.16199), Vector: Details | THE MOLECULE IS AN ALPHA2 DIMER. THE SUBUNITS ARE RELATED BY A LOCAL TWO-FOLD ROTATION AXIS. THEY ARE DISTINGUISHED BY CHAIN IDENTIFIERS A AND B, RESPECTIVELY. THE RESIDUES IN EACH SUBUNIT ARE NUMBERED FROM 3 TO 410, ACCORDING TO A SEQUENCE ALIGNMENT WITH THE LONGER SEQUENCE OF PIG CYTOSOLIC ASPARTATE AMINOTRANSFERASE (SEE U. GRAF-HAUSNER, K.J. WILSON AND P. CHRISTEN (1983) J.BIOL.CHEM. 258, 8813-8826). | |
-Components
#1: Protein | Mass: 44992.484 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / Organ: HEART / Organelle: MITOCHONDRIA / Production host: unidentified (others) / References: UniProt: P00508, aspartate transaminase #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.6 % Description: BECAUSE OF THE LOW REDUNDANCY, THE DATA WERE SCALED TO A REFERENCE DATA SET CALCULATED FROM THE COORDINATES OF THE HOLO-AAT STRUCTURE REFINED AT 1.9 ANGSTROMS RESOLUTION (MCPHALEN ET AL., 1992). | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.5 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: ENRAF-NONIUS FAST / Detector: DIFFRACTOMETER / Date: Jan 1, 1991 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 25752 / Redundancy: 1.21 % / Rmerge(I) obs: 0.041 |
-Processing
Software |
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Refinement | Resolution: 2.3→8 Å / Num. reflection obs: 25169 / σ(F): 0 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.7 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→8 Å
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Refine LS restraints |
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Software | *PLUS Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rwork: 0.128 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |