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- PDB-5j7n: Crystal structure of a small heat-shock protein from Xylella fast... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5j7n | ||||||
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Title | Crystal structure of a small heat-shock protein from Xylella fastidiosa reveals a distinct high order structure | ||||||
![]() | Low molecular weight heat shock protein | ||||||
![]() | CHAPERONE / Small heat shock protein / Xylella fastidiosa / alpha-crystallin domain / citrus variegated chlorosis | ||||||
Function / homology | ![]() : / Immunoglobulin-like - #790 / Hsp20/alpha crystallin family / Small heat shock protein (sHSP) domain profile. / Alpha crystallin/Hsp20 domain / HSP20-like chaperone / Immunoglobulin-like / Sandwich / Mainly Beta Similarity search - Domain/homology | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Fonseca, E.M.B. / Scorsato, V. / dos Santos, C.A. / Tomazini Jr., A. / Aparicio, R. / Polikarpov, I. | ||||||
![]() | ![]() Title: Crystal structure of a small heat-shock protein from Xylella fastidiosa reveals a distinct high-order structure. Authors: Fonseca, E.M. / Scorsato, V. / Dos Santos, M.L. / Junior, A.T. / Tada, S.F. / Dos Santos, C.A. / de Toledo, M.A. / de Souza, A.P. / Polikarpov, I. / Aparicio, R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 58 KB | Display | ![]() |
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PDB format | ![]() | 41.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 425.2 KB | Display | ![]() |
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Full document | ![]() | 426.9 KB | Display | |
Data in XML | ![]() | 6.4 KB | Display | |
Data in CIF | ![]() | 7.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3glaS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 17880.926 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: 9a5c / Gene: XF_2234 / Production host: ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.41 Å3/Da / Density % sol: 48.93 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop Details: 0.1 M HEPES sodium salt pH 7.5, 0.3 M sodium citrate, 20% 2-propanol, 15% ethylene glycol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Sep 7, 2009 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.4586 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→68.94 Å / Num. obs: 4089 / % possible obs: 98 % / Redundancy: 18.6 % / Rmerge(I) obs: 0.115 / Net I/σ(I): 17.3 |
Reflection shell | Resolution: 2.9→3 Å / Redundancy: 19.3 % / Rmerge(I) obs: 0.673 / Mean I/σ(I) obs: 3.5 / % possible all: 97.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3GLA Resolution: 2.9→40.452 Å / SU ML: 0 / Cross valid method: THROUGHOUT / σ(F): 1.39 / Phase error: 20.33 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→40.452 Å
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Refine LS restraints |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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