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- SASDCH9: Bifunctional enzyme responsible for the synthesis and hydrolysis ... -

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ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDCH9
SampleBifunctional enzyme responsible for the synthesis and hydrolysis of c-di-GMP (DcpA) with GDP
  • Sensory box/response regulator (protein), Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Function / homology
Function and homology information


: / Putative diguanylate phosphodiesterase / EAL domain / EAL domain superfamily / EAL domain profile. / EAL domain / Diguanylate cyclase, GGDEF domain / diguanylate cyclase / GGDEF domain profile. / GGDEF domain ...: / Putative diguanylate phosphodiesterase / EAL domain / EAL domain superfamily / EAL domain profile. / EAL domain / Diguanylate cyclase, GGDEF domain / diguanylate cyclase / GGDEF domain profile. / GGDEF domain / Nucleotide cyclase / GAF domain / Domain present in phytochromes and cGMP-specific phosphodiesterases. / GAF domain / GAF-like domain superfamily / Reverse transcriptase/Diguanylate cyclase domain
Similarity search - Domain/homology
Sensory box/response regulator
Similarity search - Component
Biological speciesMycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
CitationDate: 2018 Apr 13
Title: The GDP-switched GAF domain of DcpA modulates the concerted synthesis/hydrolysis of c-di-GMP in Mycobacterium smegmatis
Authors: Chen H / Li N / Luo Y / Jiang Y / Zhou C / Chen Y
Contact author
  • Na LI (National Center for Protein Science Shanghai, Shanghai, China)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #1642
Type: atomic / Radius of dummy atoms: 1.90 A / Symmetry: P2 / Chi-square value: 2.54
Search similar-shape structures of this assembly by Omokage search (details)
Model #1639
Type: dummy / Radius of dummy atoms: 4.50 A / Symmetry: P1 / Chi-square value: 4.837
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Bifunctional enzyme responsible for the synthesis and hydrolysis of c-di-GMP (DcpA) with GDP
Specimen concentration: 5 mg/ml
BufferName: 20 mM HEPES, 100 mM NaCl, 5% glycerol, 2 mM MgCl2 / pH: 7.5
Entity #876Type: protein / Description: Sensory box/response regulator / Formula weight: 67.758 / Num. of mol.: 2
Source: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
References: UniProt: A0QUG3
Sequence: MGHHHHHHMM SESLDVLVTS VATQLMAVEA ATSVSVSQQV LAELVSFFDV DVSFLRHNDH RAHATRLVAE WPPRPVDAAT DPIAVVHFAD ADPVFAMAEH LKEPAVFRPE PLYDDYQRTI EAGRHIPATS MACVPLLSGD VTTGVLGFVK FGDREWLPAE LNALKAIASL ...Sequence:
MGHHHHHHMM SESLDVLVTS VATQLMAVEA ATSVSVSQQV LAELVSFFDV DVSFLRHNDH RAHATRLVAE WPPRPVDAAT DPIAVVHFAD ADPVFAMAEH LKEPAVFRPE PLYDDYQRTI EAGRHIPATS MACVPLLSGD VTTGVLGFVK FGDREWLPAE LNALKAIASL FAQVQARIEA EERLRYLADH DHLTGLYNRR ALMAHLEARL APGQPGPVAV MFFDLDRLKA INDYLGHTAG DAFISILAQR LQRGDDAPKL IARLGGDEFV VVPDDPMSLD EATALAYRLQ SVLRERVTVD GEMLTRTVSI GIAQGIPGKD STSDVLNRAD HAVLTAKGSG GNRVAVFSDA MAMEIDFRND IELHLQSVIE GGALVLHYLP EIDMRTGEVL AAEALVRWEH PTRGLLSPDS FIGVAESINL AGELGRWVLR TACAEFSRWR ANGVGRNIVL RINVSPVQLV TDGFVESVAG IMKEFGLPRG SVCLEITESV VVQDIETTRT TLTGLHNVGV QVAIDDFGTG YSVLSLLKSL PVDTLKIDRS FVAELGSNPG DLPIVRAVIA LAGAFGLQLV AEGVETERAA LTLLRHGCYR AQGFLLSKPI LGSEMQTLLA KGRVPVHFSA APRM

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Experimental information

BeamInstrument name: Shanghai Synchrotron Radiation Facility (SSRF) BL19U2
City: Shanghai / 国: China / Type of source: X-ray synchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 2.25 mm
DetectorName: Pilatus 1M / Type: Dectris / Pixsize x: 172 mm
Scan
Title: Bifunctional enzyme responsible for the synthesis and hydrolysis of c-di-GMP (DcpA) with GDP
Measurement date: Jun 26, 2016 / Storage temperature: 4 °C / Cell temperature: 20 °C / Exposure time: 1 sec. / Number of frames: 20 / Unit: 1/A /
MinMax
Q0.0082 0.2971
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 584 /
MinMax
Q0.0150146 0.297121
P(R) point1 584
R0 200
Result
Type of curve: single_conc /
ExperimentalPorod
MW156 kDa157 kDa
Volume-298.9 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I0336.4 0.4 337.3 7.23
Radius of gyration, Rg5.16 nm0.01 5.01 nm0.01

MinMax
D-20
Guinier point16 30

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