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Yorodumi- PDB-1m8n: Choristoneura Fumiferana (Spruce Budworm) Antifreeze Protein Isof... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1m8n | ||||||
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Title | Choristoneura Fumiferana (Spruce Budworm) Antifreeze Protein Isoform 501 | ||||||
Components | Antifreeze protein isoform 501 | ||||||
Keywords | ANTIFREEZE PROTEIN / LEFT-HANDED BETA-HELIX | ||||||
Function / homology | Choristoneura fumiferana antifreeze / Insect antifreeze protein superfamily / Choristoneura fumiferana antifreeze protein (CfAFP) / Insect antifreeze protein / UDP N-Acetylglucosamine Acyltransferase; domain 1 / 3 Solenoid / Mainly Beta / Antifreeze protein isoform 501 Function and homology information | ||||||
Biological species | Choristoneura fumiferana (eastern spruce budworm) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.45 Å | ||||||
Authors | Leinala, E.K. / Davies, P.L. / Jia, Z. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2002 Title: A beta-helical antifreeze protein isoform with increased activity: structural and functional insights Authors: Leinala, E.K. / Davies, P.L. / Doucet, D. / Tyshenko, M.G. / Walker, V.K. / Jia, Z. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1m8n.cif.gz | 91.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1m8n.ent.gz | 76.1 KB | Display | PDB format |
PDBx/mmJSON format | 1m8n.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m8/1m8n ftp://data.pdbj.org/pub/pdb/validation_reports/m8/1m8n | HTTPS FTP |
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-Related structure data
Related structure data | 1l0sS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 12546.899 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Choristoneura fumiferana (eastern spruce budworm) Production host: Escherichia coli (E. coli) / References: UniProt: Q9GSA6 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 5.2 Details: PEG-4000, iso-propanol, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 295K | ||||||||||||||||||||||||
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Crystal grow | *PLUS PH range low: 5.6 / PH range high: 4.8 | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU / Wavelength: 1.54 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jan 15, 2001 |
Radiation | Monochromator: mirror / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 2.45→50 Å / Num. all: 12991 / Num. obs: 11129 / % possible obs: 82.9 % / Observed criterion σ(I): -3 |
Reflection shell | Resolution: 2.45→2.6 Å / % possible all: 69.2 |
Reflection | *PLUS Lowest resolution: 50 Å / Num. obs: 12991 / % possible obs: 85.7 % / Num. measured all: 567512 / Rmerge(I) obs: 0.078 |
Reflection shell | *PLUS % possible obs: 71.3 % / Rmerge(I) obs: 0.356 / Mean I/σ(I) obs: 2.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: Theoretical model based on pdb 1L0S Resolution: 2.45→50 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.45→50 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 50 Å | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 27.4 Å2 | ||||||||||||||||||||
Refine LS restraints | *PLUS
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