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- SASDCM9: Ammonium transporter Ks-Amt5 (ammonium sensor/transducer, Ks-Amt5) -

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Basic information

Entry
Database: SASBDB / ID: SASDCM9
SampleAmmonium transporter Ks-Amt5
  • ammonium sensor/transducer (protein), Ks-Amt5, Candidatus Kuenenia stuttgartiensis
Function / homology
Function and homology information


ammonium homeostasis / ammonium channel activity / phosphorelay sensor kinase activity / plasma membrane
Similarity search - Function
Ammonium transporter / Ammonium transporter AmtB-like domain / Ammonium Transporter Family / Ammonium/urea transporter / His Kinase A (phospho-acceptor) domain / His Kinase A (phosphoacceptor) domain / Signal transduction histidine kinase, dimerisation/phosphoacceptor domain / Signal transduction histidine kinase, dimerisation/phosphoacceptor domain superfamily / Signal transduction histidine kinase-related protein, C-terminal / Histidine kinase domain ...Ammonium transporter / Ammonium transporter AmtB-like domain / Ammonium Transporter Family / Ammonium/urea transporter / His Kinase A (phospho-acceptor) domain / His Kinase A (phosphoacceptor) domain / Signal transduction histidine kinase, dimerisation/phosphoacceptor domain / Signal transduction histidine kinase, dimerisation/phosphoacceptor domain superfamily / Signal transduction histidine kinase-related protein, C-terminal / Histidine kinase domain / Histidine kinase domain profile. / Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase / Histidine kinase-like ATPases / Histidine kinase/HSP90-like ATPase / Histidine kinase/HSP90-like ATPase superfamily
Similarity search - Domain/homology
Ammonium transporter
Similarity search - Component
Biological speciesCandidatus Kuenenia stuttgartiensis (bacteria)
CitationJournal: Nat Commun / Year: 2018
Title: Signaling ammonium across membranes through an ammonium sensor histidine kinase.
Authors: Tobias Pflüger / Camila F Hernández / Philipp Lewe / Fabian Frank / Haydyn Mertens / Dmitri Svergun / Manfred W Baumstark / Vladimir Y Lunin / Mike S M Jetten / Susana L A Andrade /
Abstract: Sensing and uptake of external ammonium is essential for anaerobic ammonium-oxidizing (anammox) bacteria, and is typically the domain of the ubiquitous Amt/Rh ammonium transporters. Here, we report ...Sensing and uptake of external ammonium is essential for anaerobic ammonium-oxidizing (anammox) bacteria, and is typically the domain of the ubiquitous Amt/Rh ammonium transporters. Here, we report on the structure and function of an ammonium sensor/transducer from the anammox bacterium "Candidatus Kuenenia stuttgartiensis" that combines a membrane-integral ammonium transporter domain with a fused histidine kinase. It contains a high-affinity ammonium binding site not present in assimilatory Amt proteins. The levels of phosphorylated histidine in the kinase are coupled to the presence of ammonium, as conformational changes during signal recognition by the Amt module are transduced internally to modulate the kinase activity. The structural analysis of this ammonium sensor by X-ray crystallography and small-angle X-ray-scattering reveals a flexible, bipartite system that recruits a large uptake transporter as a sensory module and modulates its functionality to achieve a mechanistic coupling to a kinase domain in order to trigger downstream signaling events.
Contact author
  • Haydyn Mertens (EMBL-Hamburg, European Molecular Biology Laboratory (EMBL) - Hamburg outstation, Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #2245
Type: mix / Radius of dummy atoms: 1.90 A / Symmetry: P3 / Chi-square value: 1.649 / P-value: 0.000496
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Ammonium transporter Ks-Amt5 / Specimen concentration: 10 mg/ml
BufferName: 20 mM Tris/HCl,100 mM NaCl, 5%(w/v) glycerol, 0.09%(w/v) CYMAL-5
pH: 8
Entity #909Name: Ks-Amt5 / Type: protein / Description: ammonium sensor/transducer / Formula weight: 75.514 / Num. of mol.: 3 / Source: Candidatus Kuenenia stuttgartiensis / References: UniProt: Q1Q357
Sequence: MENIQININH LWVIMAACMV FLMQLGFTSY ETGFSQSKNA ISIALRNLVD TLISSLVFFS VGFGFMFGKS YMGLIGIDLF FANDLALHPN TLSYSFFFFQ MVFASTAATI LTGAIAERSG FIPNIAGTAF IVAIIYPIFG HWAWGNLFSP DQTGWLKELG FIDFAGATVV ...Sequence:
MENIQININH LWVIMAACMV FLMQLGFTSY ETGFSQSKNA ISIALRNLVD TLISSLVFFS VGFGFMFGKS YMGLIGIDLF FANDLALHPN TLSYSFFFFQ MVFASTAATI LTGAIAERSG FIPNIAGTAF IVAIIYPIFG HWAWGNLFSP DQTGWLKELG FIDFAGATVV HSIGGWFAMA AAIMVGPRID KYNPDGSSNR IGLHNVPLAT LGTFFLWFGW FGFNGGSLLR VSVNIGLVIL NTNMAAASAG VSALIFIYAT RKRIEAGSLF TAILAGLVAI TASSNMVTPV SAVAIGLITG ILAIIAEGFI EKTLKIDDPV SAIAVHGVGG VIGTLCVAIF AQKSYLLAEN GSRMHQLGIQ ALGVIVAFSW SFGLGMLFFL CLKKVKRLRV TPEEEKRGLN VAEYEDVASW LDFIRITRLQ DINTILEKRV QEKTADLQMA NVALEKANRL KSEFLTTMSH ELRTPLNAII GFAEVLRDEI AGSLSKDQKE YVTDIHSSGH HLLDMINNIL DLSKIETGKM HLQYEEFCIE DAINDTLTII NASANNKGIS VHTNIQDNTP LLSADKTKFR QILYNLLSNA VKFTPENGKI TINVFQKDNS LQFEIVDTGI GIKPEDKEKL FEAFHQADAS LTREYEGTGL GLHLTKRLVE LHGGKIWAES TFGKGSTFFF ILPINPVNKL EHHHHHH

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Experimental information

BeamInstrument name: PETRA III EMBL P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotron / Wavelength: 0.124 Å / Dist. spec. to detc.: 2.7 mm
DetectorName: Pilatus 2M
Scan
Title: Ammonium transporter Ks-Amt5 (SEC) / Measurement date: Mar 1, 2013 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 1 sec. / Number of frames: 3600 / Unit: 1/nm /
MinMax
Q0.0893 4.423
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 750 /
MinMax
Q0.0892931 2.07843
P(R) point1 750
R0 15.8
Result
Type of curve: sec / Comments: MW estimate from excluded volume (DAMMIN) /
ExperimentalPorod
MW279 kDa300 kDa
Volume-511 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I0473 2 470 2
Radius of gyration, Rg4.9 nm0.1 4.8 nm0.1

MinMaxError
D-17 0.5
Guinier point6 75 -

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