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- SASDDE6: Photoreceptor sensory box 1 light-state (SB1-LOV-R66I) -

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Basic information

Entry
Database: SASBDB / ID: SASDDE6
SamplePhotoreceptor sensory box 1 light-state (SB1-LOV-R66I)
  • Sensory box protein light-state (R66I) (protein), PpSB1-LOV-R66I light, Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
Function / homology
Function and homology information


PAS domain / PAS-associated, C-terminal / PAC domain profile. / PAC motif / Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain) / PAS domain / PAS repeat profile. / PAS domain / PAS domain superfamily
Similarity search - Domain/homology
Biological speciesPseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440) (bacteria)
CitationJournal: PLoS One / Year: 2018
Title: Small-angle X-ray scattering study of the kinetics of light-dark transition in a LOV protein.
Authors: Katrin Röllen / Joachim Granzin / Renu Batra-Safferling / Andreas Maximilian Stadler /
Abstract: Light, oxygen, voltage (LOV) photoreceptors consist of conserved photo-responsive domains in bacteria, archaea, plants and fungi, and detect blue-light via a flavin cofactor. We investigated the blue- ...Light, oxygen, voltage (LOV) photoreceptors consist of conserved photo-responsive domains in bacteria, archaea, plants and fungi, and detect blue-light via a flavin cofactor. We investigated the blue-light induced conformational transition of the dimeric photoreceptor PpSB1-LOV-R66I from Pseudomonas putida in solution by using small-angle X-ray scattering (SAXS). SAXS experiments of the fully populated light- and dark-states under steady-state conditions revealed significant structural differences between the two states that are in agreement with the known structures determined by crystallography. We followed the transition from the light- to the dark-state by using SAXS measurements in real-time. A two-state model based on the light- and dark-state conformations could describe the measured time-course SAXS data with a relaxation time τREC of ~ 34 to 35 min being larger than the recovery time found with UV/vis spectroscopy. Unlike the flavin chromophore-based UV/vis method that is sensitive to the local chromophore environment in flavoproteins, SAXS-based assay depends on protein conformational changes and provides with an alternative to measure the recovery kinetics.
Contact author
  • Andreas Stadler (Forschungszentrum Jülich)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #1970
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 1.891
Search similar-shape structures of this assembly by Omokage search (details)
Model #1971
Type: mix / Software: (2.8.3) / Radius of dummy atoms: 1.90 A / Chi-square value: 5.639
Search similar-shape structures of this assembly by Omokage search (details)
Model #1972
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 5.639
Search similar-shape structures of this assembly by Omokage search (details)
Model #1973
Type: dummy / Software: (2.8.3) / Radius of dummy atoms: 2.00 A / Symmetry: P2 / Chi-square value: 0.783
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Photoreceptor sensory box 1 light-state (SB1-LOV-R66I)
Specimen concentration: 1.05-6.10
BufferName: 10mM Tris, 10 mM NaCl / pH: 7
Entity #1060Name: PpSB1-LOV-R66I light / Type: protein / Description: Sensory box protein light-state (R66I) / Formula weight: 18.588 / Num. of mol.: 2
Source: Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
References: UniProt: Q88E39
Sequence:
MGSSHHHHHH SSGLVPRGSH MINAQLLQSM VDASNDGIVV AEKEGDDTIL IYVNAAFEYL TGYSRDEILY QDCRFLQGDD RDQLGRARIR KAMAEGRPCR EVLRNYRKDG SAFWNELSIT PVKSDFDQRT YFIGIQKDVS RQVELERELA ELRARPKPDE RA

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Experimental information

BeamInstrument name: ESRF BM29 / City: Grenoble / 国: France / Type of source: X-ray synchrotron / Wavelength: 0.099 Å / Dist. spec. to detc.: 2.867 mm
DetectorName: Pilatus 1M / Pixsize x: 172 mm
Scan
Title: Photoreceptor sensory box 1 light-state (SB1-LOV-R66I)
Measurement date: Dec 2, 2014 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 1 sec. / Number of frames: 10 / Unit: 1/nm /
MinMax
Q0.0979 4.9693
Distance distribution function P(R)
Sofotware P(R): GNOM 4.5a / Number of points: 301 /
MinMax
Q0.2186 3.057
P(R) point39 339
R0 9.159
Result
Type of curve: merged
ExperimentalStandardStandard errorPorod
MW38.5 kDa43.25 kDa0.052 35.6 kDa
Volume---58.33 nm3

P(R)GuinierGuinier error
Forward scattering, I045.19 43.25 0.052
Radius of gyration, Rg2.63 nm2.56 nm0.15

MinMax
D-9.16
Guinier point26 85

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