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Open data
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Basic information
Entry | Database: PDB / ID: 1im2 | ||||||
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Title | HslU, Haemophilus Influenzae, Selenomethionine Variant | ||||||
![]() | ATP-DEPENDENT HSL PROTEASE ATP-BINDING SUBUNIT HSLU | ||||||
![]() | CHAPERONE / AAA family | ||||||
Function / homology | ![]() HslUV protease complex / proteasome-activating activity / protein unfolding / proteolysis involved in protein catabolic process / peptidase activity / ATP hydrolysis activity / ATP binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Trame, C.B. / McKay, D.B. | ||||||
![]() | ![]() Title: Structure of Haemophilus influenzae HslU protein in crystals with one-dimensional disorder twinning. Authors: Trame, C.B. / McKay, D.B. #1: ![]() Title: The Structures of HsIU and the ATP-dependent Protease HsIU-HsIV Authors: Bochtler, M. / Hartmann, C. / Song, H.K. / Bourenkov, G.P. / Bartunik, H.D. / Huber, R. #2: ![]() Title: Mutational Studies on HslU and its Docking Mode with HslV Authors: Song, H.K. / Hartmann, C. / Ramachandran, R. / Bochtler, M. / Behrendt, R. / Moroder, L. / Huber, R. #3: ![]() Title: Crystal and Solution Structures of an HslUV Protease-Chaperone Complex Authors: Sousa, M.C. / Trame, C.B. / Tsuruta, H. / Wilbanks, S.M. / Reddy, V.S. / McKay, D.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 79.7 KB | Display | ![]() |
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PDB format | ![]() | 59.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 834.7 KB | Display | ![]() |
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Full document | ![]() | 852.9 KB | Display | |
Data in XML | ![]() | 16.4 KB | Display | |
Data in CIF | ![]() | 21.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1g41SC 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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Details | There are 2 molecules in the asymetric unit, because of twinning we observe only one (ref entry 1G41). The biological structure consists of hexamer which packs into dodecamer with 622 symmetry. |
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Components
#1: Protein | Mass: 50144.922 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Chemical | ChemComp-SO4 / |
#3: Chemical | ChemComp-ADP / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 5.45 Å3/Da | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 7.3 Details: PEG 2000 MME, lithium sulphate, magnesium sulphate, zink sulphate, tricine, europium chloride, ADP, pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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: ADSC QUANTUM 4 / Detector: CCD / Date: May 3, 1999 / Details: mirrors | ||||||||||||
Radiation | Monochromator: SAGITALLY FOCUSED Si(111) / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.8→40 Å / Num. all: 47257 / Num. obs: 43125 / % possible obs: 90.5 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 7 % / Biso Wilson estimate: 19.1 Å2 / Rmerge(I) obs: 0.112 / Rsym value: 0.112 / Net I/σ(I): 8.3 | ||||||||||||
Reflection shell | Resolution: 2.8→2.85 Å / Redundancy: 3 % / Rmerge(I) obs: 0.305 / Mean I/σ(I) obs: 4.8 / Num. unique all: 1350 / Rsym value: 0.305 / % possible all: 61.3 | ||||||||||||
Reflection | *PLUS Num. measured all: 190830 | ||||||||||||
Reflection shell | *PLUS % possible obs: 61.3 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1G41 Resolution: 2.8→37.9 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 235868.52 / Data cutoff low absF: 0 / Isotropic thermal model: GROUP / Cross valid method: THROUGHOUT / σ(F): 2 / σ(I): 2 / Stereochemistry target values: Engh & Huber Details: TWINNING IN THE CRYSTAL PRODUCES THE P 622 SPACE GROUP AND AN EXTENDED UNIT CELL. REFINEMENT WAS PERFORMED IN THIS SETTING FOR ONE MOLECULE IN THE ASYMMETRIC UNIT. PLEASE SEE JOURNAL ...Details: TWINNING IN THE CRYSTAL PRODUCES THE P 622 SPACE GROUP AND AN EXTENDED UNIT CELL. REFINEMENT WAS PERFORMED IN THIS SETTING FOR ONE MOLECULE IN THE ASYMMETRIC UNIT. PLEASE SEE JOURNAL CITATION FOR ADDITIONAL DETAILS.
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 31.6 Å2 / ksol: 0.337 e/Å3 | |||||||||||||||||||||||||
Displacement parameters | Biso mean: 57.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.8→37.9 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.98 Å / Rfactor Rfree error: 0.021 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS σ(F): 2 / % reflection Rfree: 9.8 % / Rfactor Rfree: 0.25 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 57.6 Å2 | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.419 / % reflection Rfree: 9.9 % / Rfactor Rwork: 0.425 |