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- SASDDW5: 4-hydroxy-tetrahydrodipicolinate synthase (DHDPS-apo) from C. bot... -

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Open data


ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDDW5
Sample4-hydroxy-tetrahydrodipicolinate synthase (DHDPS-apo) from C. botulinum + pyruvate
  • 4-hydroxy-tetrahydrodipicolinate synthase from Clostridium botulinum (protein), Cbot-DHDPS, Clostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A)
Function / homology
Function and homology information


4-hydroxy-tetrahydrodipicolinate synthase / 4-hydroxy-tetrahydrodipicolinate synthase activity / diaminopimelate biosynthetic process / lysine biosynthetic process via diaminopimelate / cytosol
Similarity search - Function
4-hydroxy-tetrahydrodipicolinate synthase, DapA / Schiff base-forming aldolase, conserved site / Dihydrodipicolinate synthase signature 1. / Schiff base-forming aldolase, active site / Dihydrodipicolinate synthase signature 2. / DapA-like / Dihydrodipicolinate synthetase family / Dihydrodipicolinate synthetase family / Aldolase-type TIM barrel
Similarity search - Domain/homology
4-hydroxy-tetrahydrodipicolinate synthase
Similarity search - Component
Biological speciesClostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A) (bacteria)
CitationDate: 2018 May
Title: Substrate Locking Promotes Dimer-Dimer Docking of an Enzyme Antibiotic Target
Authors: Atkinson S / Dogovski C / Wood K / Griffin M / Gorman M / Hor L / Reboul C / Buckle A / Wuttke J / Parker M / Dobson R
Contact author
  • Sarah Atkinson (Monash University, Melbourne, Australia)

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Structure visualization

Downloads & links

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Models

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Sample

SampleName: 4-hydroxy-tetrahydrodipicolinate synthase (DHDPS-apo) from C. botulinum + pyruvate
Specimen concentration: 9.5 mg/ml
BufferName: 20mM Tris, 150mM NaCl, 5mM sodium pyruvate / pH: 8
Entity #1034Name: Cbot-DHDPS / Type: protein
Description: 4-hydroxy-tetrahydrodipicolinate synthase from Clostridium botulinum
Formula weight: 31.519 / Num. of mol.: 4
Source: Clostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A)
References: UniProt: A5I6N2
Sequence: SIFKGSGVAI ITPFTNTGVD FDKLSELIEW HIKSKTDAII VCGTTGEATT MTETERKETI KFVIDKVNKR IPVIAGTGSN NTAASIAMSK WAESIGVDGL LVITPYYNKT TQKGLVKHFK AVSDAVSTPI IIYNVPGRTG LNITPGTLKE LCEDKNIVAV KEASGNISQI ...Sequence:
SIFKGSGVAI ITPFTNTGVD FDKLSELIEW HIKSKTDAII VCGTTGEATT MTETERKETI KFVIDKVNKR IPVIAGTGSN NTAASIAMSK WAESIGVDGL LVITPYYNKT TQKGLVKHFK AVSDAVSTPI IIYNVPGRTG LNITPGTLKE LCEDKNIVAV KEASGNISQI AQIKALCGDK LDIYSGNDDQ IIPILALGGI GVISVLANVI PEDVHNMCEL YLNGKVNEAL KIQLDSLALT NALFIETNPI PVKTAMNLMN MKVGDLRLPL CEMNENNLEI LKKELKAYNL M

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Experimental information

BeamInstrument name: Australian Synchrotron SAXS/WAXS / City: Melbourne / 国: Australia / Shape: Point / Type of source: X-ray synchrotron / Wavelength: 0.10322 Å / Dist. spec. to detc.: 0.9 mm
DetectorName: Pilatus 1M
Scan
Title: 4-hydroxy-tetrahydrodipicolinate synthase (DHDPS-apo) from C. botulinum + pyruvate
Measurement date: Nov 26, 2010 / Storage temperature: 4 °C / Cell temperature: 25 °C / Exposure time: 5 sec. / Number of frames: 8 / Unit: 1/A /
MinMax
Q0.017 0.3598
Distance distribution function P(R)
Sofotware P(R): GNOM 4.5a / Number of points: 257 /
MinMax
Q0.01729 0.3594
P(R) point1 257
R0 89.28
Result
Type of curve: sec /
ExperimentalPorod
MW125 kDa-
Volume-165 nm3

P(R)GuinierGuinier error
Forward scattering, I00.07092 0.072 9.9E-5
Radius of gyration, Rg3.17 nm3.26 nm0.01

MinMax
D-8.93
Guinier point1 35

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