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- SASDEN9: HcpR transcriptional regulator of Porphyromonas gingivalis -

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Open data


ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDEN9
SampleHcpR transcriptional regulator of Porphyromonas gingivalis
  • Hcp Transcriptional regulator (protein), HcpR, Porphyromonas gingivalis (strain ATCC BAA-308 / W83)
Function / homology
Function and homology information


regulation of DNA-templated transcription / DNA binding
Similarity search - Function
helix_turn_helix, cAMP Regulatory protein / Crp-type HTH domain profile. / Crp-like helix-turn-helix domain / Crp-type HTH domain / Cyclic nucleotide-binding domain / cAMP/cGMP binding motif profile. / Cyclic nucleotide-binding domain / Cyclic nucleotide-binding domain superfamily / RmlC-like jelly roll fold / Winged helix DNA-binding domain superfamily
Similarity search - Domain/homology
Transcriptional regulator, putative
Similarity search - Component
Biological speciesPorphyromonas gingivalis (strain ATCC BAA-308 / W83) (bacteria)
CitationDate: 2019 Apr 1
Title: Nitrosative stress sensing in Porphyromonas gingivalis: structure of and heme binding by the transcriptional regulator HcpR
Authors: Belvin B / Musayev F / Burgner J / Scarsdale J / Escalante C
Contact author
  • Benjamin Belvin (Virginia Commonwelath University)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #2770
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 0.655
Search similar-shape structures of this assembly by Omokage search (details)
Model #2771
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 0.655
Search similar-shape structures of this assembly by Omokage search (details)
Model #2772
Type: mix / Radius of dummy atoms: 1.90 A / Chi-square value: 0.655
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: HcpR transcriptional regulator of Porphyromonas gingivalis
Specimen concentration: 2 mg/ml
BufferName: 25 mM Tris 150 mM NaCl 1mM TCEP / pH: 7.5
Entity #1416Name: HcpR / Type: protein / Description: Hcp Transcriptional regulator / Formula weight: 25.495 / Num. of mol.: 2
Source: Porphyromonas gingivalis (strain ATCC BAA-308 / W83)
References: UniProt: Q7MVK4
Sequence: MDPEFDLLLK AWKSSGLSVG MKDDELLALL ESCSYRVERL KAEELYAIGG DKLQDLRIVG VGEIRAEMVG PSGKQILIDT LAVGRILAPA LLFASENILP VTLFANEDSV LFRIGKEEFK GMMHKYPTLM ENFIGMISDI SAFLMKKIHQ LSLRSLQGKI GDYLFQLYTK ...Sequence:
MDPEFDLLLK AWKSSGLSVG MKDDELLALL ESCSYRVERL KAEELYAIGG DKLQDLRIVG VGEIRAEMVG PSGKQILIDT LAVGRILAPA LLFASENILP VTLFANEDSV LFRIGKEEFK GMMHKYPTLM ENFIGMISDI SAFLMKKIHQ LSLRSLQGKI GDYLFQLYTK DGSNRIVVES SWKELSDRFG VNRQSLARSL SQLEEEGIIR VDGKSIEILQ PNRLSRL

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Experimental information

BeamInstrument name: Advanced Light Source (ALS) 12.3.1 (SIBYLS)
City: Berkeley, CA / 国: USA / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.103 Å / Dist. spec. to detc.: 3.5 mm
DetectorName: Pilatus3 X 2M / Pixsize x: 172 mm
Scan
Title: HcpR transcriptional regulator of Porphyromonas gingivalis
Measurement date: Jan 24, 2014 / Storage temperature: 4 °C / Cell temperature: 21 °C / Exposure time: 60 sec. / Unit: 1/A /
MinMax
Q0.0143 0.3256
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 418 /
MinMax
Q0.022805 0.276371
P(R) point1 418
R0 105.3
Result
Type of curve: single_conc /
ExperimentalPorod
MW44.03 kDa48 kDa
Volume-76 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I0283.1 0.9 282.9 0.57
Radius of gyration, Rg2.93 nm0.01 2.89 nm0.05

MinMax
D-10.5
Guinier point15 51

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