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Yorodumi- PDB-4cat: THREE-DIMENSIONAL STRUCTURE OF CATALASE FROM PENICILLIUM VITALE A... -
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-Basic information
Entry | Database: PDB / ID: 4cat | |||||||||
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Title | THREE-DIMENSIONAL STRUCTURE OF CATALASE FROM PENICILLIUM VITALE AT 2.0 ANGSTROMS RESOLUTION | |||||||||
Components | CATALASE | |||||||||
Keywords | OXIDOREDUCTASE(H2O2(A)) | |||||||||
Function / homology | PROTOPORPHYRIN IX CONTAINING FE Function and homology information | |||||||||
Biological species | Penicillium janthinellum (fungus) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 3 Å | |||||||||
Authors | Vainshtein, B.K. / Melik-Adamyan, W.R. / Barynin, V.V. / Vagin, A.A. / Grebenko, A.I. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 1986 Title: Three-dimensional structure of catalase from Penicillium vitale at 2.0 A resolution. Authors: Vainshtein, B.K. / Melik-Adamyan, W.R. / Barynin, V.V. / Vagin, A.A. / Grebenko, A.I. / Borisov, V.V. / Bartels, K.S. / Fita, I. / Rossmann, M.G. #1: Journal: J.Mol.Biol. / Year: 1986 Title: Comparison of Beef Liver and Penicillium Vitale Catalases Authors: Melik-Adamyan, W.R. / Barynin, V.V. / Vagin, A.A. / Borisov, V.V. / Vainshtein, B.K. / Fita, I. / Murthy, M.R.N. / Rossmann, M.G. #2: Journal: Kristallografiya / Year: 1982 Title: The Mechanism of Crystallization of Proteins in an Ultracentrifuge (Russian) Authors: Barynin, V.V. / Melik-Adamyan, V.R. #3: Journal: Sov.Phys.Crystallogr.(Engl.Transl.) / Year: 1982 Title: The Mechanism of Crystallization of Proteins in an Ultracentrifuge Authors: Barynin, V.V. / Melik-Adamyan, V.R. #4: Journal: Kristallografiya / Year: 1981 Title: Structure of Penicillium Vitale Catalase (Russian) Authors: Vainshtein, B.K. / Melik-Adamyan, V.R. / Barynin, V.V. / Vagin, A.A. / Grebenko, A.I. #5: Journal: Sov.Phys.Crystallogr.(Engl.Transl.) / Year: 1981 Title: Structure of Catalase of Penicillium Vitale Authors: Vainshtein, B.K. / Melik-Adamyan, W.R. / Barynin, V.V. / Vagin, A.A. / Grebenko, A.I. #6: Journal: Nature / Year: 1981 Title: Three-Dimensional Structure of the Enzyme Catalase Authors: Vainshtein, B.K. / Melik-Adamyan, W.R. / Barynin, V.V. / Vagin, A.A. / Grebenko, A.I. #7: Journal: Dokl.Akad.Nauk Sssr / Year: 1980 Title: X-Ray Diffraction Study of Catalase from Penicillium Vitale at 3.5 Angstroms Resolution (Russian) Authors: Vainshtein, B.K. / Melik-Adamian, V.R. / Barynin, V.V. / Vagin, A.A. #8: Journal: Dokl.Biochem.(Engl.Transl.) / Year: 1980 Title: X-Ray Diffraction Investigation of Catalase of Penicillium Vitale with 3.5 Angstroms Resolution Authors: Vainshtein, B.K. / Melik-Adamyan, V.R. / Barynin, V.V. / Vagin, A.A. #9: Journal: Dokl.Akad.Nauk Sssr / Year: 1979 Title: X-Ray Study of the Structure of Catalase of Penicillium Vitale Pidopl. Et Bilai with the 6 Angstroms Resolution (Russian) Authors: Vainstein, B.K. / Melik-Adamian, V.R. / Barynin, V.V. / Vagin, A.A. / Nekrasov, Iu.V. / Malinina, I.V. / Gulyi, M.F. / Gudkova, L.V. / Degtiar, R.G. #10: Journal: Dokl.Biochem.(Engl.Transl.) / Year: 1979 Title: X-Ray Diffraction Investigation of the Structure of Catalase of the Fungus Penicillium Vitale Pidopl. Et Bilai with a Resolution of 6 Angstroms Authors: Vainshtein, B.K. / Melik-Adamyan, V.R. / Barynin, V.V. / Vagin, A.A. / Nekrasov, Yu.N. / Malinina, L.V. / Gulyi, M.F. / Gudkova, L.V. / Degtyar, R.G. #11: Journal: Kristallografiya / Year: 1975 Title: Crystallization of Catalase in an Ultracentrifuge (Russian) Authors: Karpukhina, S.Ya. / Barynin, V.V. / Lobanova, G.M. #12: Journal: Sov.Phys.Crystallogr.(Engl.Transl.) / Year: 1975 Title: Crystallization of Catalase in the Ultracentrifuge Authors: Karpukhina, S.Ya. / Barynin, V.V. / Lobanova, G.M. | |||||||||
History |
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Remark 700 | SHEET THE NINE-STRANDED BETA-SHEET *B1* PRESENTED ON SHEET RECORDS BELOW IS ACTUALLY AN EIGHT- ...SHEET THE NINE-STRANDED BETA-SHEET *B1* PRESENTED ON SHEET RECORDS BELOW IS ACTUALLY AN EIGHT-STRANDED BETA-BARREL. THIS IS DENOTED BY HAVING THE FIRST STRAND RECUR AS THE LAST. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4cat.cif.gz | 122.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4cat.ent.gz | 91.4 KB | Display | PDB format |
PDBx/mmJSON format | 4cat.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ca/4cat ftp://data.pdbj.org/pub/pdb/validation_reports/ca/4cat | HTTPS FTP |
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-Related structure data
Similar structure data |
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-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 5. | ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.571766, -0.247241, -0.782224), Vector: Details | PENICILLIUM VITALE CATALASE IS A MOLECULE WITH 222 SYMMETRY. THE ASYMMETRIC UNIT COMPRISES TWO SUBUNITS RELATED BY A NON-CRYSTALLOGRAPHIC TWO-FOLD AXIS. COORDINATES FOR ONE SUBUNIT ARE GIVEN IN THIS ENTRY. APPLYING THE TRANSFORMATION GIVEN ON THE MTRIX RECORDS BELOW WILL GENERATE COORDINATES FOR THE OTHER HALF OF THE ASYMMETRIC UNIT. | |
-Components
#1: Protein | Mass: 56102.242 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Penicillium janthinellum (fungus) / References: catalase #2: Chemical | Nonpolymer details | THERE IS SOME EVIDENCE THAT THE HEME OF THIS CATALASE IS UNUSUAL AND THE PROTOPORPHYRIN IX ...THERE IS SOME EVIDENCE THAT THE HEME OF THIS CATALASE IS UNUSUAL AND THE PROTOPORPH | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.59 Å3/Da / Density % sol: 65.73 % |
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-Processing
Refinement | Highest resolution: 3 Å | ||||||||||||
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Refinement step | Cycle: LAST / Highest resolution: 3 Å
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