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Yorodumi- PDB-6cts: PROPOSED MECHANISM FOR THE CONDENSATION REACTION OF CITRATE SYNTH... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6cts | ||||||
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Title | PROPOSED MECHANISM FOR THE CONDENSATION REACTION OF CITRATE SYNTHASE. 1.9-ANGSTROMS STRUCTURE OF THE TERNARY COMPLEX WITH OXALOACETATE AND CARBOXYMETHYL COENZYME A | ||||||
Components | CITRATE SYNTHASE | ||||||
Keywords | OXO-ACID-LYASE | ||||||
Function / homology | Function and homology information citrate (Si)-synthase / The tricarboxylic acid cycle / citrate (Si)-synthase activity / citrate synthase activity / citrate metabolic process / tricarboxylic acid cycle / carbohydrate metabolic process / mitochondrial matrix / mitochondrion Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | ||||||
Authors | Karpusas, M. / Branchaud, B. / Remington, S.J. | ||||||
Citation | Journal: Biochemistry / Year: 1990 Title: Proposed mechanism for the condensation reaction of citrate synthase: 1.9-A structure of the ternary complex with oxaloacetate and carboxymethyl coenzyme A. Authors: Karpusas, M. / Branchaud, B. / Remington, S.J. #1: Journal: J.Mol.Biol. / Year: 1984 Title: Crystal Structure Analysis and Molecular Model of a Complex of Citrate Synthase with Oxaloacetate and S-Acetonyl-Coenzymea Authors: Wiegand, G. / Remington, S. / Deisenhofer, J. / Huber, R. #2: Journal: J.Mol.Biol. / Year: 1982 Title: Crystallographic Refinement and Atomic Models of Two Different Forms of Citrate Synthase at 2.7 And 1.7 Angstroms Resolution Authors: Remington, S. / Wiegand, G. / Huber, R. #3: Journal: Proc.Natl.Acad.Sci.USA / Year: 1981 Title: Primary Structure of Porcine Heart Citrate Synthase Authors: Bloxham, D.P. / Parmelee, D.C. / Kumar, S. / Wade, R.D. / Ericsson, L.H. / Neurath, H. / Walsh, K.A. / Titani, K. #4: Journal: Eur.J.Biochem. / Year: 1979 Title: Crystal Structure Analysis of the Tetragonal Crystal Form and Preliminary Molecular Model of Pig-Heart Citrate Synthase Authors: Wiegand, G. / Kukla, D. / Scholze, H. / Jones, T.A. / Huber, R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6cts.cif.gz | 98.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6cts.ent.gz | 74.5 KB | Display | PDB format |
PDBx/mmJSON format | 6cts.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ct/6cts ftp://data.pdbj.org/pub/pdb/validation_reports/ct/6cts | HTTPS FTP |
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-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: SEE REMARK 3. | ||||||||
Details | THE MOLECULE IS A DIMER, WITH ONE MONOMER OF MOLECULAR WEIGHT 50000 IN THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT. THE SYMMETRY-RELATED MONOMER CAN BE GENERATED BY THE FOLLOWING CRYSTALLOGRAPHIC TWO-FOLD OPERATION, XS = - XO YS = YO ZS = - ZO WHERE (XO,YO,ZO) ARE THE COORDINATES IN THIS ENTRY AND (XS,YS,ZS) ARE THE SYMMETRY-RELATED SET. |
-Components
#1: Protein | Mass: 47322.172 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / References: UniProt: P23007, EC: 4.1.3.7 |
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#2: Chemical | ChemComp-CIC / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.45 Å3/Da / Density % sol: 49.87 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 6 / Method: vapor diffusion / Details: took Remington et al., 1982 from original paper | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 1.9 Å / Num. obs: 30444 / Num. measured all: 61965 |
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-Processing
Software | Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.5→6 Å / Rfactor obs: 0.11 | ||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→6 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.11 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: t_angle_d / Dev ideal: 3.2 |