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Yorodumi- PDB-1ctm: CRYSTAL STRUCTURE OF CHLOROPLAST CYTOCHROME F REVEALS A NOVEL CYT... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ctm | |||||||||
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Title | CRYSTAL STRUCTURE OF CHLOROPLAST CYTOCHROME F REVEALS A NOVEL CYTOCHROME FOLD AND UNEXPECTED HEME LIGATION | |||||||||
Components | CYTOCHROME F | |||||||||
Keywords | ELECTRON TRANSPORT(CYTOCHROME) | |||||||||
Function / homology | Function and homology information chloroplast thylakoid membrane / photosynthesis / electron transfer activity / iron ion binding / heme binding Similarity search - Function | |||||||||
Biological species | Brassica rapa (field mustard) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 2.3 Å | |||||||||
Authors | Martinez, S.E. / Huang, D. / Szczepaniak, A. / Cramer, W.A. / Smith, J.L. | |||||||||
Citation | Journal: Structure / Year: 1994 Title: Crystal structure of chloroplast cytochrome f reveals a novel cytochrome fold and unexpected heme ligation. Authors: Martinez, S.E. / Huang, D. / Szczepaniak, A. / Cramer, W.A. / Smith, J.L. #1: Journal: Research in Photosynthesis: Proceedings of the Ixth International Congress on Photosynthesis Year: 1992 Title: Crystallographic Studies of the Lumen-Side Domain of Turnip Cytochrome Authors: Martinez, S.E. / Smith, J.L. / Huang, D. / Szczepaniak, A. / Cramer, W.A. | |||||||||
History |
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Remark 650 | HELIX ALL HELICES ARE IN THE LARGE DOMAIN ONLY AND ARE DENOTED BY A LETTER ONLY. | |||||||||
Remark 700 | SHEET STRAND 3 OF SHEET SDA AND STRAND 3 OF SHEET SDB ARE PARTS OF A PIECE OF EXTENDED CHAIN WHICH ...SHEET STRAND 3 OF SHEET SDA AND STRAND 3 OF SHEET SDB ARE PARTS OF A PIECE OF EXTENDED CHAIN WHICH IS SPLIT BETWEEN BETWEEN THE TWO SHEETS. RESIDUES 176 - 179 BELONG TO SHEET SDA AND RESIDUES 181 - 185 BELONG TO SHEET SDB WITH A KINK IN BETWEEN. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ctm.cif.gz | 60.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ctm.ent.gz | 47.8 KB | Display | PDB format |
PDBx/mmJSON format | 1ctm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ct/1ctm ftp://data.pdbj.org/pub/pdb/validation_reports/ct/1ctm | 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: CIS PROLINE - PRO 117 |
-Components
#1: Protein | Mass: 27318.189 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Brassica rapa (field mustard) / References: UniProt: P36438 |
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#2: Chemical | ChemComp-HEC / |
#3: Water | ChemComp-HOH / |
Sequence details | THE SEQUENCE PRESENTED IN THIS ENTRY HAS NOT BEEN DEPOSITED IN THE SEQUENCE DATABASES. IT IS ...THE SEQUENCE PRESENTED IN THIS ENTRY HAS NOT BEEN DEPOSITED IN THE SEQUENCE DATABASES. IT IS DESCRIBED IN THE *JRNL* ARTICLE. |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.75 Å3/Da / Density % sol: 55.21 % |
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Crystal grow | *PLUS Method: unknown |
-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.3 Å / Num. obs: 13189 / % possible obs: 94.7 % / Num. measured all: 52944 / Rmerge(I) obs: 0.051 |
-Processing
Software |
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Refinement | Resolution: 2.3→6 Å / σ(F): 1
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Refinement step | Cycle: LAST / Resolution: 2.3→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 6 Å / Num. reflection obs: 10903 / σ(F): 1 / Rfactor obs: 0.198 / Rfactor Rfree: 0.277 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.99 |