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Open data
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Basic information
Entry | Database: PDB / ID: 1e1e | ||||||
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Title | Crystal structure of a Monocot (Maize ZMGlu1) beta-glucosidase | ||||||
![]() | BETA-GLUCOSIDASE | ||||||
![]() | HYDROLASE / GLYCOSIDE HYDROLASE / BETA-GLUCOSIDASE / FAMILY 1 / RETENTION OF THE ANOMERIC CONFIGURATION | ||||||
Function / homology | ![]() galactosidase activity / fucosidase activity / xylanase activity / 4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase / DIMBOA glucoside beta-D-glucosidase activity / cytokinin-activated signaling pathway / mannosidase activity / cellulose 1,4-beta-cellobiosidase activity / scopolin beta-glucosidase activity / beta-glucosidase ...galactosidase activity / fucosidase activity / xylanase activity / 4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase / DIMBOA glucoside beta-D-glucosidase activity / cytokinin-activated signaling pathway / mannosidase activity / cellulose 1,4-beta-cellobiosidase activity / scopolin beta-glucosidase activity / beta-glucosidase / beta-glucosidase activity / chloroplast / carbohydrate metabolic process Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Czjzek, M. / Cicek, M. / Bevan, D.R. / Henrissat, B. / Esen, A. | ||||||
![]() | ![]() Title: Crystal Structure of a Monocotyledon (Maize Zmglu1) Beta-Glucosidase and a Model of its Complex with P-Nitrophenyl Beta-D-Thioglucoside Authors: Czjzek, M. / Cicek, M. / Zamboni, V. / Burmeister, W.P. / Bevan, D.R. / Henrissat, B. / Esen, A. #1: ![]() Title: Nucleotide Sequence of a Cdna Corresponding to a Second Beta-Glucosidase Gene in Maize Authors: Bandaranayake, H. / Esen, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 205 KB | Display | ![]() |
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PDB format | ![]() | 166.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 430.6 KB | Display | ![]() |
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Full document | ![]() | 474.8 KB | Display | |
Data in XML | ![]() | 44.6 KB | Display | |
Data in CIF | ![]() | 62 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1e1fC ![]() 1cbgS S: Starting model for refinement C: citing same article ( |
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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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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.88564, 0.35057, 0.30456), Vector: |
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Components
#1: Protein | Mass: 58472.445 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.5 Å3/Da / Density % sol: 50.86 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.6 / Details: 0.2 M AMMONIUM SULFATE, pH 5.60 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Date: Jan 15, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.93 Å / Relative weight: 1 |
Reflection | Resolution: 2.42→29.1 Å / Num. obs: 549492 / % possible obs: 99 % / Redundancy: 3.6 % / Rmerge(I) obs: 0.074 / Rsym value: 0.11 / Net I/σ(I): 6.4 |
Reflection shell | Resolution: 2.34→2.42 Å / Redundancy: 3.6 % / Rmerge(I) obs: 0.074 / Mean I/σ(I) obs: 2.3 / Rsym value: 0.207 / % possible all: 99 |
Reflection | *PLUS Lowest resolution: 27 Å / Num. obs: 42762 / % possible obs: 99.9 % / Num. measured all: 153615 / Rmerge(I) obs: 0.093 |
Reflection shell | *PLUS % possible obs: 99.9 % / Rmerge(I) obs: 0.276 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1CBG Resolution: 2.5→27 Å / Data cutoff high absF: 10000000 / Cross valid method: THROUGHOUT / σ(F): 0.1
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 48.69 Å2 / ksol: 0.325 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 50.39 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.5→27 Å
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Refine LS restraints |
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Refine LS restraints NCS | Rms dev position: 0.362 Å / Weight position: 10 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.5→2.59 Å / Total num. of bins used: 10
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Xplor file | Serial no: 1 / Param file: PROTEIN_REP.PARAM / Topol file: PROTEIN.TOP | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.24 / Rfactor Rfree: 0.283 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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