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    - PDB-4a5q: Crystal structure of the chitinase Chi1 fitted into the 3D struct... -

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    Basic information

    Entry
    Database: PDB / ID: 4a5q
    TitleCrystal structure of the chitinase Chi1 fitted into the 3D structure of the Yersinia entomophaga toxin complex
    DescriptorCHI1 (E.C.3.2.1.14)
    KeywordsHYDROLASE / BACTERIAL TOXIN / INSECTICIDE
    Specimen sourceYersinia entomophaga / bacteria
    MethodElectron microscopy (17 A resolution / Single particle)
    AuthorsBusby, J.N. / Landsberg, M.J. / Simpson, R.M. / Jones, S.A. / Hankamer, B. / Hurst, M.R.H. / Lott, J.S.
    CitationJ. Mol. Biol., 2012, 415, 359-371

    J. Mol. Biol., 2012, 415, 359-371 StrPapers
    Structural analysis of Chi1 Chitinase from Yen-Tc: the multisubunit insecticidal ABC toxin complex of Yersinia entomophaga.
    Jason N Busby / Michael J Landsberg / Robert M Simpson / Sandra A Jones / Ben Hankamer / Mark R H Hurst / J Shaun Lott

    DateDeposition: Oct 27, 2011 / Release: Nov 16, 2011 / Last modification: Sep 25, 2013

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    Assembly

    Deposited unit
    A: CHI1
    B: CHI1
    C: CHI1
    D: CHI1
    E: CHI1

    304 kDa, 5 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    303,6355
    Polyers303,6355
    Non-polymers00
    Water0

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    #1
    A: CHI1

    defined by author / 60.7 kDa, 1 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    60,7271
    Polyers60,7271
    Non-polymers00
    Water0
    / Symmetry operations: (identity)x1
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    #2
    B: CHI1

    defined by author / 60.7 kDa, 1 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    60,7271
    Polyers60,7271
    Non-polymers00
    Water0
    / Symmetry operations: (identity)x1
    Download / Omokage search
    #3
    C: CHI1

    defined by author / 60.7 kDa, 1 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    60,7271
    Polyers60,7271
    Non-polymers00
    Water0
    / Symmetry operations: (identity)x1
    Download / Omokage search
    #4
    D: CHI1

    defined by author / 60.7 kDa, 1 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    60,7271
    Polyers60,7271
    Non-polymers00
    Water0
    / Symmetry operations: (identity)x1
    Download / Omokage search
    #5
    E: CHI1

    defined by author / 60.7 kDa, 1 molecules
    Theoretical massNumber of molelcules
    Total
    (without water)
    60,7271
    Polyers60,7271
    Non-polymers00
    Water0
    / Symmetry operations: (identity)x1
    Download / Omokage search

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    Components

    #1polypeptide(L) / CHI1 / Source: YERSINIA ENTOMOPHAGA (gene. exp.) / References: UniProt: B6A876, EC: 3.2.1.14

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    Experimental details

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    Experiment

    ExperimentMethod: ELECTRON MICROSCOPY
    EM experimentReconstruction method: SINGLE PARTICLE

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    Sample preparation

    Assembly of specimenName: INSECTICIDAL TC FROM YERSINIA ENTOMOPHAGA STRAIN MH96 (DELETION CONSTRUCT 9)(AKA YEN-TC K9)
    Aggregation state: PARTICLE
    Details: PARTICLES WERE SELECTED USING SEMI-AUTOMATED PARTICLE SELECTION ( SWARMPS, E2BOXER.PY)
    Buffer solutionName: 25 MM TRIS, 130 MM NACL
    Sample preparationpH: 7.5 / Sample conc.: 0.1 mg/ml
    Specimen supportDetails: OTHER

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    Electron microscopy imaging

    MicroscopyMicroscope model: FEI TECNAI F30 / Date: Jun 2, 2009
    Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 80 e/A2 / Illumination mode: FLOOD BEAM
    Electron lensMode: BRIGHT FIELD / Nominal magnification: 59000 X / Nominal defocus max: 950 nm / Nominal defocus min: 900 nm / Cs: 2 mm
    Specimen holderTemperature: 295 K
    CameraType: GATAN USC 4000 (MODEL 895)
    EM image scansNumber digital images: 300
    Radiation wavelengthRelative weight: 1

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    Processing

    Image selectionSoftware name: XMIPP, EMAN / Number of particles: 10604
    3D reconstructionMethod: CROSS-COMMON LINES, PROJECTION MATCHING / Resolution: 17 A
    Details: SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-1978.(DEPOSITION ID: 10324).
    Atomic model buildingMethod: RIGID BODY / Overall b value: 22.09 / Ref protocol: X-RAY / Ref space: REAL / Target criteria: CROSS-CORRELATION COEFFICIENT
    Least-squares processHighest resolution: 17 A
    Refine hist #LASTHighest resolution: 17 A
    Number of atoms included #LASTProtein: 20005 / Nucleic acid: 0 / Ligand: 0 / Solvent: 0 / Total: 20005

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