Metal Binding Properties of Escherichia coli YjiA, a Member of the Metal Homeostasis-Associated COG0523 Family of GTPases

Sydor, Andrew M.; Jost, Marco; Ryan, Katherine S.; Turo, Kaitlyn E.; Douglas, Colin D.; Drennan, Catherine L.; Zamble, Deborah B.

doi:10.1021/bi301600z

Title: Metal Binding Properties of Escherichia coli YjiA, a Member of the Metal Homeostasis-Associated COG0523 Family of GTPases

Journal Article · Thu Feb 28 00:00:00 EST 2013 · Biochemistry

DOI:https://doi.org/10.1021/bi301600z· OSTI ID:1123358

Sydor, Andrew M. ^[1]; Jost, Marco; Ryan, Katherine S.; Turo, Kaitlyn E.; Douglas, Colin D. ^[1]; Drennan, Catherine L.; Zamble, Deborah B. ^[1]

Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, ON, Canada M5S 3H6

View Journal Article

Cite

Export

Save

Sponsoring Organization:: USDOE

OSTI ID:: 1123358

Journal Information:: Biochemistry, Journal Name: Biochemistry Vol. 52 Journal Issue: 10; ISSN 0006-2960

Publisher:: American Chemical SocietyCopyright Statement

Country of Publication:: United States

Language:: English

Citation Metrics:

Cited by: 38 works

Citation information provided by
Web of Science

References (55)

Functional specialization within the Fur family of metalloregulators Lee, Jin-Won; Helmann, John D. BioMetals, Vol. 20, Issue 3-4 https://doi.org/10.1007/s10534-006-9070-7	journal	January 2007
YeiR: a metal-binding GTPase from Escherichia coli involved in metal homeostasis Blaby-Haas, Crysten E.; Flood, Jessica A.; Crécy-Lagard, Valérie de Metallomics, Vol. 4, Issue 5 https://doi.org/10.1039/c2mt20012k	journal	January 2012
The Zur regulon of Corynebacterium glutamicum ATCC 13032 Schröder, Jasmin; Jochmann, Nina; Rodionov, Dmitry A. BMC Genomics, Vol. 11, Issue 1 https://doi.org/10.1186/1471-2164-11-12	journal	January 2010
Structural and Spectroscopic Features of Mono- and Binuclear Nickel(II) Complexes with Tetradentate N(amine) ₂ S(thiolate) ₂ Ligation Stibrany, Robert T.; Fox, Stephen; Bharadwaj, Parimal K. Inorganic Chemistry, Vol. 44, Issue 23 https://doi.org/10.1021/ic050114h	journal	November 2005
Microbial nickel proteins Kaluarachchi, Harini; Chan Chung, Kim C.; Zamble, Deborah B. Natural Product Reports, Vol. 27, Issue 5 https://doi.org/10.1039/b906688h	journal	January 2010
How to study proteins by circular dichroism Kelly, Sharon M.; Jess, Thomas J.; Price, Nicholas C. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, Vol. 1751, Issue 2 https://doi.org/10.1016/j.bbapap.2005.06.005	journal	August 2005
The system E ₈ , a special class of simple polyhedra and gas hydrate structures Talis, Alexander; Samoylovich, Mikhail; Ronova, Inga Acta Crystallographica Section A Foundations of Crystallography, Vol. 66, Issue a1 https://doi.org/10.1107/S0108767310099757	journal	August 2010
Over 1000 genes are involved in the DNA damage response of Escherichia coli: DNA damage response of E. coli Khil, Pavel P.; Camerini-Otero, R. Daniel Molecular Microbiology, Vol. 44, Issue 1 https://doi.org/10.1046/j.1365-2958.2002.02878.x	journal	April 2002
TLSMD web server for the generation of multi-group TLS models Painter, Jay; Merritt, Ethan A. Journal of Applied Crystallography, Vol. 39, Issue 1 https://doi.org/10.1107/S0021889805038987	journal	January 2006
Vitamin B12: How the Problem of Its Biosynthesis Was Solved Blanche, Francis; Cameron, Beatrice; Crouzet, Joel Angewandte Chemie International Edition in English, Vol. 34, Issue 4 https://doi.org/10.1002/anie.199503831	journal	March 1995
The P-loop — a common motif in ATP- and GTP-binding proteins Saraste, Matti; Sibbald, Peter R.; Wittinghofer, Alfred Trends in Biochemical Sciences, Vol. 15, Issue 11 https://doi.org/10.1016/0968-0004(90)90281-F	journal	November 1990
Nucleotide sequence and genetic analysis of a 13.1-kilobase-pair Pseudomonas denitrificans DNA fragment containing five cob genes and identification of structural genes encoding Cob(I)alamin adenosyltransferase, cobyric acid synthase, and bifunctional cobinamide kinase-cobinamide phosphate guanylyltransferase Crouzet, J.; Levy-Schil, S.; Cameron, B. Journal of Bacteriology, Vol. 173, Issue 19 https://doi.org/10.1128/jb.173.19.6074-6087.1991	journal	October 1991
Motif CXCC in nitrile hydratase activator is critical for NHase biogenesis in vivo Lu, Jun; Zheng, Yujuan; Yamagishi, Hiromi FEBS Letters, Vol. 553, Issue 3 https://doi.org/10.1016/S0014-5793(03)01070-6	journal	September 2003
Superconducting Single Crystals of Tl2Ba2CaCu2O8 and YBa2Cu4O8: Crystal Structures in the Vicinity of Tc Molchanov, V. N.; Simonov, V. I. Acta Crystallographica Section A Foundations of Crystallography, Vol. 54, Issue 6 https://doi.org/10.1107/S0108767398011465	journal	November 1998
Searching protein structure databases with DaliLite v.3 Holm, L.; Kaariainen, S.; Rosenstrom, P. Bioinformatics, Vol. 24, Issue 23 https://doi.org/10.1093/bioinformatics/btn507	journal	September 2008
A high-performance liquid chromatography method for determining transition metal content in proteins Atanassova, Anelia; Lam, Robert; Zamble, Deborah B. Analytical Biochemistry, Vol. 335, Issue 1 https://doi.org/10.1016/j.ab.2004.08.013	journal	December 2004
Structural Insights into HypB, a GTP-binding Protein That Regulates Metal Binding Gasper, Raphael; Scrima, Andrea; Wittinghofer, Alfred Journal of Biological Chemistry, Vol. 281, Issue 37 https://doi.org/10.1074/jbc.M600809200	journal	June 2006
Prediction of protein secondary structure from circular dichroism using theoretically derived spectra Louis-Jeune, Caroline; Andrade-Navarro, Miguel A.; Perez-Iratxeta, Carol Proteins: Structure, Function, and Bioinformatics, Vol. 80, Issue 2 https://doi.org/10.1002/prot.23188	journal	November 2011
Classification and evolution of P-loop GTPases and related ATPases Leipe, Detlef D.; Wolf, Yuri I.; Koonin, Eugene V. Journal of Molecular Biology, Vol. 317, Issue 1 https://doi.org/10.1006/jmbi.2001.5378	journal	March 2002
Imidazole-Containing (N ₃ S)-Ni ^II Complexes Relating to Nickel Containing Biomolecules Jenkins, Roxanne M.; Singleton, Michael L.; Almaraz, Elky Inorganic Chemistry, Vol. 48, Issue 15 https://doi.org/10.1021/ic900778k	journal	July 2009
Zn ²⁺ -linked dimerization of UreG from Helicobacter pylori , a chaperone involved in nickel trafficking and urease activation Zambelli, Barbara; Turano, Paola; Musiani, Francesco Proteins: Structure, Function, and Bioinformatics, Vol. 74, Issue 1 https://doi.org/10.1002/prot.22205	journal	January 2009
Inference of Macromolecular Assemblies from Crystalline State Krissinel, Evgeny; Henrick, Kim Journal of Molecular Biology, Vol. 372, Issue 3 https://doi.org/10.1016/j.jmb.2007.05.022	journal	September 2007
Crystal structure of the Escherichia coli YjiA protein suggests a GTP-dependent regulatory function Khil, Pavel P.; Obmolova, Galina; Teplyakov, Alexey Proteins: Structure, Function, and Bioinformatics, Vol. 54, Issue 2 https://doi.org/10.1002/prot.10430	journal	November 2003
Order of Stability of Metal Complexes Irving, H.; Williams, R. J. P. Nature, Vol. 162, Issue 4123 https://doi.org/10.1038/162746a0	journal	November 1948
Nickel Homeostasis and Nickel Regulation: An Overview Li, Yanjie; Zamble, Deborah B. Chemical Reviews, Vol. 109, Issue 10 https://doi.org/10.1021/cr900010n	journal	October 2009
CHOOCH : a program for deriving anomalous-scattering factors from X-ray fluorescence spectra Evans, Gwyndaf; Pettifer, Robert F. Journal of Applied Crystallography, Vol. 34, Issue 1 https://doi.org/10.1107/S0021889800014655	journal	February 2001
New tools for structure refinement in PHENIX Adams, Paul; Afonine, Pavel; Echols, Nat Acta Crystallographica Section A Foundations of Crystallography, Vol. 66, Issue a1 https://doi.org/10.1107/S010876731009968X	journal	August 2010
Effects of Metal on the Biochemical Properties of Helicobacter pylori HypB, a Maturation Factor of [NiFe]-Hydrogenase and Urease Sydor, A. M.; Liu, J.; Zamble, D. B. Journal of Bacteriology, Vol. 193, Issue 6 https://doi.org/10.1128/JB.01333-10	journal	January 2011
Occurrence, Classification, and Biological Function of Hydrogenases: An Overview Vignais, Paulette M.; Billoud, Bernard Chemical Reviews, Vol. 107, Issue 10, p. 4206-4272 https://doi.org/10.1021/cr050196r	journal	October 2007
Ribosome-associated GTPases: The role of RNA for GTPase activation Clementi, Nina; Polacek, Norbert RNA Biology, Vol. 7, Issue 5 https://doi.org/10.4161/rna.7.5.12467	journal	September 2010
Small GTP-Binding Proteins Takai, Yoshimi; Sasaki, Takuya; Matozaki, Takashi Physiological Reviews, Vol. 81, Issue 1 https://doi.org/10.1152/physrev.2001.81.1.153	journal	January 2001
Binding of zinc(II) and copper(II) to the full-length Alzheimer’s amyloid-β peptide Tõugu, Vello; Karafin, Ann; Palumaa, Peep Journal of Neurochemistry, Vol. 104, Issue 5 https://doi.org/10.1111/j.1471-4159.2007.05061.x	journal	March 2008
Characterization of the Response to Zinc Deficiency in the Cyanobacterium Anabaena sp. Strain PCC 7120 Napolitano, M.; Rubio, M. A.; Santamaria-Gomez, J. Journal of Bacteriology, Vol. 194, Issue 10 https://doi.org/10.1128/JB.00090-12	journal	March 2012
Comparative Genomics of the Vitamin B ₁₂ Metabolism and Regulation in Prokaryotes Rodionov, Dmitry A.; Vitreschak, Alexey G.; Mironov, Andrey A. Journal of Biological Chemistry, Vol. 278, Issue 42 https://doi.org/10.1074/jbc.M305837200	journal	July 2003
RegPrecise: a database of curated genomic inferences of transcriptional regulatory interactions in prokaryotes Novichkov, Pavel S.; Laikova, Olga N.; Novichkova, Elena S. Nucleic Acids Research, Vol. 38, Issue suppl_1 https://doi.org/10.1093/nar/gkp894	journal	October 2009
COBALT: constraint-based alignment tool for multiple protein sequences Papadopoulos, J. S.; Agarwala, R. Bioinformatics, Vol. 23, Issue 9 https://doi.org/10.1093/bioinformatics/btm076	journal	March 2007
A subset of the diverse COG0523 family of putative metal chaperones is linked to zinc homeostasis in all kingdoms of life Haas, Crysten E.; Rodionov, Dmitry A.; Kropat, Janette BMC Genomics, Vol. 10, Issue 1 https://doi.org/10.1186/1471-2164-10-470	journal	January 2009
An improved assay for nanomole amounts of inorganic phosphate Lanzetta, Peter A.; Alvarez, Lawrence J.; Reinach, Peter S. Analytical Biochemistry, Vol. 100, Issue 1 https://doi.org/10.1016/0003-2697(79)90115-5	journal	November 1979
A comprehensive library of fluorescent transcriptional reporters for Escherichia coli Zaslaver, Alon; Bren, Anat; Ronen, Michal Nature Methods, Vol. 3, Issue 8, p. 623-628 https://doi.org/10.1038/nmeth895	journal	August 2006
The Base-Pairing RNA Spot 42 Participates in a Multioutput Feedforward Loop to Help Enact Catabolite Repression in Escherichia coli Beisel, Chase L.; Storz, Gisela Molecular Cell, Vol. 41, Issue 3 https://doi.org/10.1016/j.molcel.2010.12.027	journal	February 2011
The product of the hypB gene, which is required for nickel incorporation into hydrogenases, is a novel guanine nucleotide-binding protein. Maier, T.; Jacobi, A.; Sauter, M. Journal of Bacteriology, Vol. 175, Issue 3 https://doi.org/10.1128/jb.175.3.630-635.1993	journal	February 1993
Chemistry of Ni ²⁺ in Urease: Sensing, Trafficking, and Catalysis Zambelli, Barbara; Musiani, Francesco; Benini, Stefano Accounts of Chemical Research, Vol. 44, Issue 7 https://doi.org/10.1021/ar200041k	journal	May 2011
The use of 4-(2-pyridylazo)resorcinol in studies of zinc release from Escherichia coli aspartate transcarbamoylase Hunt, John B.; Neece, Sue H.; Ginsburg, Ann Analytical Biochemistry, Vol. 146, Issue 1 https://doi.org/10.1016/0003-2697(85)90409-9	journal	April 1985
Metallo-GTPase HypB from Helicobacter pylori and Its Interaction with Nickel Chaperone Protein HypA Xia, Wei; Li, Hongyan; Yang, Xinming Journal of Biological Chemistry, Vol. 287, Issue 9 https://doi.org/10.1074/jbc.M111.287581	journal	February 2012
The GTPase superfamily: a conserved switch for diverse cell functions Bourne, Henry R.; Sanders, David A.; McCormick, Frank Nature, Vol. 348, Issue 6297 https://doi.org/10.1038/348125a0	journal	November 1990
Calculation of protein extinction coefficients from amino acid sequence data Gill, Stanley C.; von Hippel, Peter H. Analytical Biochemistry, Vol. 182, Issue 2 https://doi.org/10.1016/0003-2697(89)90602-7	journal	November 1989
Relationship between the GTPase, metal-binding, and dimerization activities of E. coli HypB Cai, Fang; Ngu, Thanh T.; Kaluarachchi, Harini JBIC Journal of Biological Inorganic Chemistry, Vol. 16, Issue 6 https://doi.org/10.1007/s00775-011-0782-y	journal	May 2011
Escherichia coli SlyD, More Than a Ni(II) Reservoir Kaluarachchi, Harini; Zhang, Jei Wei; Zamble, Deborah B. Biochemistry, Vol. 50, Issue 50 https://doi.org/10.1021/bi201590d	journal	December 2011
Crystal annealing—nothing to lose Stevenson, Clare E. M.; Mayer, S. M.; Delarbre, L. Journal of Crystal Growth, Vol. 232, Issue 1-4 https://doi.org/10.1016/S0022-0248(01)01138-1	journal	November 2001
Analysis of zinc-ligand bond lengths in metalloproteins: Trends and patterns Tamames, Bruno; Sousa, Sérgio Filipe; Tamames, Juan Proteins: Structure, Function, and Bioinformatics, Vol. 69, Issue 3 https://doi.org/10.1002/prot.21536	journal	July 2007
Preparation and properties of cobalt(II) rubredoxin May, Sheldon W.; Kuo, Jong-Yuan Biochemistry, Vol. 17, Issue 16 https://doi.org/10.1021/bi00609a025	journal	August 1978
Microbial Physiology of Nickel and Cobalt Hausinger, Robert P.; Zamble, Deborah B. Molecular Microbiology of Heavy Metals https://doi.org/10.1007/7171_2006_082	book	January 2007
Aerobic synthesis of vitamin B12: ring contraction and cobalt chelation Heldt, D.; Lawrence, A. D.; Lindenmeyer, M. Biochemical Society Transactions, Vol. 33, Issue 4 https://doi.org/10.1042/BST0330815	journal	August 2005
Visual egta titration of calcium in the,presence of magnesium Sadek, F. Talanta, Vol. 2, Issue 1 https://doi.org/10.1016/0039-9140(59)80028-X	journal	January 1959
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007

Similar Records

Metal Binding Properties of Escherichia coli YjiA, a Member of the Metal Homeostasis-Associated COG0523 Family of GTPases

Journal Article · Tue Mar 19 00:00:00 EDT 2013 · Biochemistry-US · OSTI ID:1123358

Sydor, Andrew M; Jost, Marco; Ryan, Katherine S; +4 more

Structures of the Escherichia coli transcription activator and regulator of diauxie, XylR: an AraC DNA-binding family member with a LacI/GalR ligand-binding domain

Journal Article · Fri Dec 14 00:00:00 EST 2012 · Nucleic Acids Research · OSTI ID:1123358

Ni, Lisheng; Tonthat, Nam K.; Chinnam, Nagababu; +1 more

A subset of the diverse COG0523 family of putative metal chaperones is linked to zinc homeostasis in all kingdoms of life

Journal Article · Thu Jan 01 00:00:00 EST 2009 · BMC Genomics · OSTI ID:1123358

Haas, Crysten E.; Rodionov, Dmitry A.; Kropat, Janette; +3 more

Title: Metal Binding Properties of Escherichia coli YjiA, a Member of the Metal Homeostasis-Associated COG0523 Family of GTPases

Citation Formats

References (55)

Similar Records

Related Subjects