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- PDB-1h80: 1,3-ALPHA-1,4-BETA-D-GALACTOSE-4-SULFATE- 3,6-ANHYDRO-D-GALACTOSE... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1h80 | ||||||
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Title | 1,3-ALPHA-1,4-BETA-D-GALACTOSE-4-SULFATE- 3,6-ANHYDRO-D-GALACTOSE-2-SULFATE 4 GALACTOHYDROLASE | ||||||
![]() | IOTA-CARRAGEENASE | ||||||
![]() | HYDROLASE / IOTA-CARRAGEENAN DOUBLE HELIX DEGRADATION | ||||||
Function / homology | ![]() iota-carrageenase / iota-carrageenase activity / polysaccharide catabolic process / cell wall organization / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Michel, G. / Chantalat, L. / Dideberg, O. | ||||||
![]() | ![]() Title: The Iota-Carrageenase of Alteromonas Fortis. A Beta-Helix Fold-Containing Enzyme for the Degradation of a Highly Polyanionic Polysaccharide Authors: Michel, G. / Chantalat, L. / Fanchon, E. / Henrissat, B. / Kloareg, B. / Dideberg, O. #1: Journal: Acta Crystallogr.,Sect.D / Year: 2000 Title: Expression, Purification, Cristallization and Preliminary X-Ray Analysis of the Iota-Carrageenase from Alteromonas Fortis Authors: Michel, G. / Flament, D. / Barbeyron, T. / Vernet, T. / Kloareg, B. / Dideberg, O. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 207.9 KB | Display | ![]() |
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PDB format | ![]() | 171.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 456.1 KB | Display | ![]() |
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Full document | ![]() | 470.5 KB | Display | |
Data in XML | ![]() | 45.7 KB | Display | |
Data in CIF | ![]() | 69.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.9928, 0.08692, 0.08239), Vector: |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 51936.082 Da / Num. of mol.: 2 / Fragment: CATALYTIC DOMAIN RESIDUES 28-491 Source method: isolated from a genetically manipulated source Details: COMPLEXED WITH CALCIUM, SODIUM AND CHLORIDE / Source: (gene. exp.) ![]() ![]() ![]() |
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-Non-polymers , 5 types, 1130 molecules ![](data/chem/img/CA.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-CA / #3: Chemical | #4: Chemical | ChemComp-NA / #5: Chemical | ChemComp-GOL / #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 52 % / Description: MAD DATA COLLECTION ON BM30 | |||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 6.5 Details: 0.1 M SODIUM CACODYLATE PH 6.5, 10% GLYCEROL, 15-17% PEG6000, 200MM CALCIUM ACETATE | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 288 K / Method: vapor diffusion, hanging dropDetails: Michel, G., (2000) Acta Crystallogr.,Sect.D, 56, 766. | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Jul 15, 1998 / Details: MIRRORS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→20 Å / Num. obs: 762046 / % possible obs: 97.7 % / Redundancy: 4.8 % / Biso Wilson estimate: 18.4 Å2 / Rsym value: 0.123 |
Reflection shell | Resolution: 1.6→1.66 Å / Rsym value: 0.203 / % possible all: 96.1 |
Reflection | *PLUS Highest resolution: 1.6 Å / Redundancy: 4.8 % / Num. measured all: 157467 / Rmerge(I) obs: 0.123 |
Reflection shell | *PLUS Highest resolution: 1.6 Å / % possible obs: 96.1 % / Rmerge(I) obs: 0.203 |
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Processing
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Refinement | Method to determine structure: ![]() Details: DOMAIN A HAS A HIGHER B FACTOR, REGIONS 314 - 334 AND 341 - 350 ARE NOT VISIBLE IN THE ELECTRON DENSITY MAP
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 50.2073 Å2 / ksol: 0.415064 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 22.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.6→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.6→1.7 Å / Rfactor Rfree error: 0.007 / Total num. of bins used: 6
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Xplor file |
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Refinement | *PLUS Highest resolution: 1.6 Å / Lowest resolution: 20 Å / % reflection Rfree: 5 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Lowest resolution: 1.66 Å |