protein_name
stringlengths
4
4
structure_title
stringlengths
3
322
main_text
stringlengths
0
302k
3MKT
Structure of a Cation-bound Multidrug and Toxin Compound Extrusion (MATE) transporter
Structure of a Cation-bound Multidrug and Toxic Compound Extrusion Transporter Xiao He, Paul Szewczyk, Andrey Karyakin, Mariah Evin, Wen-Xu Hong, Qinghai Zhang, and Geoffrey Chang† Department of Molecular Biology, The Scripps Research Institute, 10550 N. Torrey Pines Rd, CB105, La Jolla CA 92037 Abstract Transporter pr...
3MKU
Structure of a Cation-bound Multidrug and Toxin Compound Extrusion (MATE) transporter
Structure of a Cation-bound Multidrug and Toxic Compound Extrusion Transporter Xiao He, Paul Szewczyk, Andrey Karyakin, Mariah Evin, Wen-Xu Hong, Qinghai Zhang, and Geoffrey Chang† Department of Molecular Biology, The Scripps Research Institute, 10550 N. Torrey Pines Rd, CB105, La Jolla CA 92037 Abstract Transporter pr...
3MKV
Crystal structure of amidohydrolase eaj56179
Functional Identification and Structure Determination of Two Novel Prolidases from cog1228 in the Amidohydrolase Superfamily Dao Feng Xiang‡, Yury PatskovskyΨ, Chengfu Xu‡, Alexander A. FedorovΨ, Elena V. FedorovΨ, Abby A. Sisco‡, J. Michael Sauder§, Stephen K. Burley§, Steven C. AlmoΨ,*, and Frank M. Raushel‡,* ‡Depar...
3MKW
Structure of sopB(155-272)-18mer complex, I23 form
Insight into F plasmid DNA segregation revealed by structures of SopB and SopB–DNA complexes Maria A. Schumacher*, Kevin M. Piro and Weijun Xu Department of Biochemistry and Molecular Biology, University of Texas, M.D. Anderson Cancer Center, Unit 1000, Houston, TX 77030, USA Received January 7, 2010; Revised February ...
3MKY
Structure of SopB(155-323)-18mer DNA complex, I23 form
Insight into F plasmid DNA segregation revealed by structures of SopB and SopB–DNA complexes Maria A. Schumacher*, Kevin M. Piro and Weijun Xu Department of Biochemistry and Molecular Biology, University of Texas, M.D. Anderson Cancer Center, Unit 1000, Houston, TX 77030, USA Received January 7, 2010; Revised February ...
3MKZ
Structure of SopB(155-272)-18mer complex, P21 form
Insight into F plasmid DNA segregation revealed by structures of SopB and SopB–DNA complexes Maria A. Schumacher*, Kevin M. Piro and Weijun Xu Department of Biochemistry and Molecular Biology, University of Texas, M.D. Anderson Cancer Center, Unit 1000, Houston, TX 77030, USA Received January 7, 2010; Revised February ...
3ML0
Thermostable Penicillin G acylase from Alcaligenes faecalis in tetragonal form
structural communications Acta Cryst. (2012). F68, 273–277 doi:10.1107/S1744309111053930 273 Acta Crystallographica Section F Structural Biology and Crystallization Communications ISSN 1744-3091 Crystallization and X-ray structure analysis of a thermostable penicillin G acylase from Alcaligenes faecalis Nishant Kumar V...
3ML2
Human carbonic anhydsase II in complex with an aryl sulfonamide inhibitor
Coumarinyl-substituted sulfonamides strongly inhibit several human carbonic anhydrase isoforms: solution and crystallographic investigations‡ Jason Wagnera, Balendu Sankara Avvarua, Arthur H. Robbinsa, Andrea Scozzafavab, Claudiu T. Supuranb,*, and Robert McKennaa,* aDepartment of Biochemistry and Molecular Biology, Co...
3ML3
Crystal structure of the IcsA autochaperone region
JOURNAL OF BACTERIOLOGY, Apr. 2011, p. 2042–2045 Vol. 193, No. 8 0021-9193/11/$12.00 doi:10.1128/JB.00790-10 Copyright © 2011, American Society for Microbiology. All Rights Reserved. NOTES Crystal Structure of the Autochaperone Region from the Shigella flexneri Autotransporter IcsA† Karin Ku¨hnel* and Dagmar Diezmann D...
3ML4
Crystal structure of a complex between Dok7 PH-PTB and the MuSK juxtamembrane region
The Cytoplasmic Adapter-Protein Dok7 Activates the Receptor Tyrosine Kinase MuSK via Dimerization Elisa Bergamin1, Peter T. Hallock2, Steven J. Burden2, and Stevan R. Hubbard1,* 1Structural Biology Program, Kimmel Center for Biology and Medicine of the Skirball Institute, and Department of Pharmacology, New York Univer...
3ML6
a complex between Dishevelled2 and clathrin adaptor AP-2
Structural analysis of the interaction between Dishevelled2 and clathrin AP-2 adaptor, a critical step in non-canonical Wnt signaling Anan Yu1,*, Yi Xing2,*, Stephen C. Harrison2,3, and Tomas Kirchhausen1 1 Department of Cell Biology and Immune Disease Institute, Harvard Medical School, Boston, MA 02115 2 Jack and Eile...
3ML8
Discovery of the Highly Potent PI3K/mTOR Dual Inhibitor PF-04691502 through Structure Based Drug Design
Discovery of the Highly Potent PI3K/mTOR Dual Inhibitor PF- 04979064 through Structure-Based Drug Design Hengmiao Cheng,*,† Chunze Li,‡ Simon Bailey,† Sangita M. Baxi,§ Lance Goulet,‡ Lisa Guo,† Jacqui Hoffman,† Ying Jiang,‡ Theodore Otto Johnson,† Ted W. Johnson,† Daniel R. Knighton,† John Li,§ Kevin K.-C. Liu,† Zhengy...
3ML9
Discovery of the Highly Potent PI3K/mTOR Dual Inhibitor PF-04691502 through Structure Based Drug Design
Discovery of the Highly Potent PI3K/mTOR Dual Inhibitor PF- 04979064 through Structure-Based Drug Design Hengmiao Cheng,*,† Chunze Li,‡ Simon Bailey,† Sangita M. Baxi,§ Lance Goulet,‡ Lisa Guo,† Jacqui Hoffman,† Ying Jiang,‡ Theodore Otto Johnson,† Ted W. Johnson,† Daniel R. Knighton,† John Li,§ Kevin K.-C. Liu,† Zhengy...
3MLA
BaNadD in complex with inhibitor 1_02
Complexes of bacterial nicotinate mononucleotide adenylyltransferase with inhibitors: implication for structure- based drug design and improvement§ Nian Huang1,†, Rohit Kolhatkar2,†, Yvonne Eyobo1, Leonardo Sorci3, Irina Rodionova3, Andrei L. Osterman3, Alexander D. MacKerell Jr.2,*, and Hong Zhang1,* 1Department of Bi...
3MLB
BaNadD in complex with inhibitor 1_02_1
Complexes of bacterial nicotinate mononucleotide adenylyltransferase with inhibitors: implication for structure- based drug design and improvement§ Nian Huang1,†, Rohit Kolhatkar2,†, Yvonne Eyobo1, Leonardo Sorci3, Irina Rodionova3, Andrei L. Osterman3, Alexander D. MacKerell Jr.2,*, and Hong Zhang1,* 1Department of Bi...
3MLC
Crystal structure of FG41MSAD inactivated by 3-chloropropiolate
Kinetic, Mutational, and Structural Analysis of Malonate Semialdehyde Decarboxylase from Coryneform bacterium strain FG41: Mechanistic Implications for the Decarboxylase and Hydratase Activities Youzhong Guo∥,§, Hector Serrano∥,§, Gerrit J. Poelarends‡, William H. Johnson Jr.∥, Marvin L. Hackert⊥, and Christian P. Whit...
3MLE
Crystal structure of dethiobiotin synthetase (BioD) from Helicobacter pylori cocrystallized with ATP
Structural characterization of H. pylori dethiobiotin synthetase reveals differences between family members Przemyslaw J. Porebski1,2,7, Maria Klimecka1,7, Maksymilian Chruszcz1,7, Robert A. Nicholls1,5,7, Krzysztof Murzyn1,2,7, Marianne E. Cuff4,7, Xiaohui Xu3,7, Marcin Cymborowski1,7, Garib N. Murshudov6, Alexei Savc...
3MLG
2ouf-2x, a designed knotted protein
Structure and folding of a designed knotted protein Neil P. Kinga, Alex W. Jacobitza, Michael R. Sawayab, Lukasz Goldschmidta, and Todd O. Yeatesa,c,d,e,1 aDepartment of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095-1569; bHoward Hughes Medical Institute, University of California, Los Ange...
3MLH
Crystal structure of the 2009 H1N1 influenza virus hemagglutinin receptor-binding domain
JOURNAL OF VIROLOGY, Jan. 2011, p. 865–872 Vol. 85, No. 2 0022-538X/11/$12.00 doi:10.1128/JVI.01412-10 Copyright © 2011, American Society for Microbiology. All Rights Reserved. The Receptor-Binding Domain of Influenza Virus Hemagglutinin Produced in Escherichia coli Folds into Its Native, Immunogenic Structure Rebecca ...
3MLI
2ouf-ds, a disulfide-linked dimer of Helicobacter pylori protein HP0242
Structure and folding of a designed knotted protein Neil P. Kinga, Alex W. Jacobitza, Michael R. Sawayab, Lukasz Goldschmidta, and Todd O. Yeatesa,c,d,e,1 aDepartment of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095-1569; bHoward Hughes Medical Institute, University of California, Los Ange...
3MLJ
Reduced (Cu+) peptidylglycine alpha-hydroxylating monooxygenase (PHM) with bound carbon monooxide (CO)
Differential Reactivity Between Two Copper Sites in Peptidylglycine α-Hydroxylating Monooxygenase (PHM) Eduardo E. Chufán1, Sean T. Prigge2, Xavier Siebert1, Betty A. Eipper3, Richard E. Mains3, and L. Mario Amzel1,* 1Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Johns Hopkins Un...
3MLK
Reduced (Cu+) peptidylglycine alpha-hydroxylating monooxygenase (PHM) with bound nitrite
Differential Reactivity Between Two Copper Sites in Peptidylglycine α-Hydroxylating Monooxygenase (PHM) Eduardo E. Chufán1, Sean T. Prigge2, Xavier Siebert1, Betty A. Eipper3, Richard E. Mains3, and L. Mario Amzel1,* 1Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Johns Hopkins Un...
3MLL
Reduced (Cu+) peptidylglycine alpha-hydroxylating monooxygenase (PHM) with bound azide
Differential Reactivity Between Two Copper Sites in Peptidylglycine α-Hydroxylating Monooxygenase (PHM) Eduardo E. Chufán1, Sean T. Prigge2, Xavier Siebert1, Betty A. Eipper3, Richard E. Mains3, and L. Mario Amzel1,* 1Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Johns Hopkins Un...
3MLN
DNA binding domain of Early B-cell Factor 1 (Ebf1) bound to DNA (crystal form II)
RESEARCH COMMUNICATION Structure of an Ebf1:DNA complex reveals unusual DNA recognition and structural homology with Rel proteins Nora Treiber,1,3 Thomas Treiber,1,3 Georg Zocher,2 and Rudolf Grosschedl1,4 1Department of Cellular and Molecular Immunology, Max Planck Institute of Immunobiology, 79108 Freiburg, Germany; ...
3MLO
DNA binding domain of Early B-cell Factor 1 (Ebf1) bound to DNA (Crystal form I)
RESEARCH COMMUNICATION Structure of an Ebf1:DNA complex reveals unusual DNA recognition and structural homology with Rel proteins Nora Treiber,1,3 Thomas Treiber,1,3 Georg Zocher,2 and Rudolf Grosschedl1,4 1Department of Cellular and Molecular Immunology, Max Planck Institute of Immunobiology, 79108 Freiburg, Germany; ...
3MLP
Early B-cell Factor 1 (Ebf1) bound to DNA
RESEARCH COMMUNICATION Structure of an Ebf1:DNA complex reveals unusual DNA recognition and structural homology with Rel proteins Nora Treiber,1,3 Thomas Treiber,1,3 Georg Zocher,2 and Rudolf Grosschedl1,4 1Department of Cellular and Molecular Immunology, Max Planck Institute of Immunobiology, 79108 Freiburg, Germany; ...
3MLQ
Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain
Structural basis for the bacterial transcription-repair coupling factor/RNA polymerase interaction Lars F. Westblade1, Elizabeth A. Campbell1, Chirangini Pukhrambam2, Julio C. Padovan3, Bryce E. Nickels2, Valerie Lamour1 and Seth A. Darst1,* 1Laboratory of Molecular Biophysics, The Rockefeller University, 1230 York Ave...
3MME
Structure and functional dissection of PG16, an antibody with broad and potent neutralization of HIV-1
JOURNAL OF VIROLOGY, Aug. 2010, p. 8098–8110 Vol. 84, No. 16 0022-538X/10/$12.00 doi:10.1128/JVI.00966-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Crystal Structure of PG16 and Chimeric Dissection with Somatically Related PG9: Structure-Function Analysis of Two Quaternary-Specific Antibo...
3MMG
Crystal structure of tobacco vein mottling virus protease
Structural determinants of tobacco vein mottling virus protease substrate specificity Ping Sun,1 Brian P. Austin,1 Jo´ zsef To¨ zse´ r,2 and David S. Waugh1* 1Macromolecular Crystallography Laboratory, Center for Cancer Research, National Cancer Institute at Frederick, Frederick, Maryland 2Department of Biochemistry an...
3MMH
X-ray structure of free methionine-R-sulfoxide reductase from neisseria meningitidis in complex with its substrate
Structural and Biochemical Characterization of Free Methionine-R-sulfoxide Reductase from Neisseria meningitidis*□ S Received for publication,April 16, 2010, and in revised form, May 6, 2010 Published, JBC Papers in Press,May 19, 2010, DOI 10.1074/jbc.M110.134528 Arnaud Gruez1, Marouane Libiad1,2, Sandrine Boschi-Mulle...
3MMI
Crystal structure of the globular tail of Myo4p
JCB: Article The Rockefeller University Press   $30.00 J. Cell Biol. Vol. 189 No. 3  497–510 www.jcb.org/cgi/doi/10.1083/jcb.201002076 JCB 497 Correspondence to Dierk Niessing: niessing@helmholtz-muenchen.de Abbreviations used in this paper: ASH, asymmetric synthesis of HO; COG, conserved oligomeric Golgi; GT, globula...
3MMJ
Structure of the PTP-like phytase from Selenomonas ruminantium in complex with myo-inositol hexakisphosphate
Substrate Binding in Protein-tyrosine Phosphatase-like Inositol Polyphosphatases*□ S Received for publication,October 19, 2011, and in revised form, November 30, 2011 Published, JBC Papers in Press,December 2, 2011, DOI 10.1074/jbc.M111.309872 Robert J. Gruninger‡, Selina Dobing‡, Adam D. Smith‡, Lisza M. Bruder‡, L. B...
3MMK
The structural basis for partial redundancy in a class of transcription factors, the lim-homeodomain proteins, in neural cell type specification
Structural Basis for Partial Redundancy in a Class of Transcription Factors, the LIM Homeodomain Proteins, in Neural Cell Type Specification*□ S Received for publication,April 6, 2011, and in revised form, October 12, 2011 Published, JBC Papers in Press,October 24, 2011, DOI 10.1074/jbc.M111.248559 Morgan S. Gadd1, Mug...
3MMP
Structure of the Qb replicase, an RNA-dependent RNA polymerase consisting of viral and host proteins
Structure of the Qβ replicase, an RNA-dependent RNA polymerase consisting of viral and host proteins Rune T. Kidmosea,b,1, Nikita N. Vasilievc,1, Alexander B. Chetverinc, Gregers Rom Andersena,b,2, and Charlotte R. Knudsena aDepartment of Molecular Biology, University of Aarhus, Gustav Wieds Vej 10C, DK-8000 Aarhus, De...
3MMR
Structure of Plasmodium falciparum Arginase in complex with ABH
Crystal Structure of Arginase from Plasmodium falciparum and Implications for L-Arginine Depletion in Malarial Infection‡ Daniel P. Dowling§, Monica Ilies§, Kellen L. Olszewski£, Silvia Portugal#, Maria M. Mota#, Manuel Llinás£, and David W. Christianson*,§ §Roy and Diana Vagelos Laboratories, Department of Chemistry, ...
3MMT
Crystal structure of fructose bisphosphate aldolase from Bartonella henselae, bound to fructose bisphosphate
structural communications Acta Cryst. (2011). F67, 1051–1054 doi:10.1107/S174430911101894X 1051 Acta Crystallographica Section F Structural Biology and Crystallization Communications ISSN 1744-3091 Structure of fructose bisphosphate aldolase from Bartonella henselae bound to fructose 1,6-bisphosphate Anna Gardberg,a* J...
3MMV
Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
Structures of actin-bound Wiskott-Aldrich syndrome protein homology 2 (WH2) domains of Spire and the implication for filament nucleation Anna M. Duckaa, Peteranne Joelb, Grzegorz M. Popowicza, Kathleen M. Trybusb, Michael Schleicherc, Angelika A. Noegeld, Robert Hubera,e,f,1, Tad A. Holaka,1, and Tomasz Sitara,1 aMax-P...
3MMX
Bacillus anthracis NadD (baNadD) in complex with compound 1_02_3
Complexes of bacterial nicotinate mononucleotide adenylyltransferase with inhibitors: implication for structure- based drug design and improvement§ Nian Huang1,†, Rohit Kolhatkar2,†, Yvonne Eyobo1, Leonardo Sorci3, Irina Rodionova3, Andrei L. Osterman3, Alexander D. MacKerell Jr.2,*, and Hong Zhang1,* 1Department of Bi...
3MMY
Structural and functional analysis of the interaction between the nucleoporin Nup98 and the mRNA export factor Rae1
Structural and functional analysis of the interaction between the nucleoporin Nup98 and the mRNA export factor Rae1 Yi Ren, Hyuk-Soo Seo, Günter Blobel1, and André Hoelz1 Laboratory of Cell Biology, Howard Hughes Medical Institute, The Rockefeller University, 1230 York Avenue, New York, NY 10065 Contributed by Günter B...
3MMZ
CRYSTAL STRUCTURE OF putative HAD family hydrolase from Streptomyces avermitilis MA-4680
The Structural Basis for Divergence of Substrate Specificity and Biological Function within HAD Phosphatases in Lipopolysaccharide and Sialic Acid Biosynthesis Kelly D. Daughtry†, Hua Huang§, Vladimir Malashkevich‡, Yury Patskovsky‡, Weifeng Liu‡, Udupi Ramagopal‡, J. Michael Sauder‖, Stephen K. Burley‖,ˆ, Steven C. Al...
3MN0
Introducing a 2-His-1-Glu Non-Heme Iron Center into Myoglobin confers Nitric Oxide Reductase activity: Cu(II)-CN-FeBMb(-His) form
Introducing a 2-His-1-Glu Non-heme Iron Center into Myoglobin Confers Nitric Oxide Reductase Activity Ying-Wu Lin†,Δ, Natasha Yeung†, Yi-Gui Gao‡, Kyle D. Miner§, Lanyu Lei†, Howard Robinson¶, and Yi Lu†,§,* †Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801,USA ‡George L. Clar...
3MN1
Crystal structure of probable yrbi family phosphatase from pseudomonas syringae pv.phaseolica 1448a
The Structural Basis for Divergence of Substrate Specificity and Biological Function within HAD Phosphatases in Lipopolysaccharide and Sialic Acid Biosynthesis Kelly D. Daughtry†, Hua Huang§, Vladimir Malashkevich‡, Yury Patskovsky‡, Weifeng Liu‡, Udupi Ramagopal‡, J. Michael Sauder‖, Stephen K. Burley‖,ˆ, Steven C. Al...
3MN3
An inhibited conformation for the protein kinase domain of the Saccharomyces cerevisiae AMPK homolog Snf1
structural communications Acta Cryst. (2010). F66, 999–1002 doi:10.1107/S1744309110028265 999 Acta Crystallographica Section F Structural Biology and Crystallization Communications ISSN 1744-3091 An inhibited conformation for the protein kinase domain of the Saccharomyces cerevisiae AMPK homolog Snf1 Michael J. Rudolph...
3MN5
Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
Structures of actin-bound Wiskott-Aldrich syndrome protein homology 2 (WH2) domains of Spire and the implication for filament nucleation Anna M. Duckaa, Peteranne Joelb, Grzegorz M. Popowicza, Kathleen M. Trybusb, Michael Schleicherc, Angelika A. Noegeld, Robert Hubera,e,f,1, Tad A. Holaka,1, and Tomasz Sitara,1 aMax-P...
3MN6
Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
Structures of actin-bound Wiskott-Aldrich syndrome protein homology 2 (WH2) domains of Spire and the implication for filament nucleation Anna M. Duckaa, Peteranne Joelb, Grzegorz M. Popowicza, Kathleen M. Trybusb, Michael Schleicherc, Angelika A. Noegeld, Robert Hubera,e,f,1, Tad A. Holaka,1, and Tomasz Sitara,1 aMax-P...
3MN7
Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
Structures of actin-bound Wiskott-Aldrich syndrome protein homology 2 (WH2) domains of Spire and the implication for filament nucleation Anna M. Duckaa, Peteranne Joelb, Grzegorz M. Popowicza, Kathleen M. Trybusb, Michael Schleicherc, Angelika A. Noegeld, Robert Hubera,e,f,1, Tad A. Holaka,1, and Tomasz Sitara,1 aMax-P...
3MN8
Structure of Drosophila melanogaster carboxypeptidase D isoform 1B short
Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID- 19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its C...
3MN9
Structures of actin-bound WH2 domains of Spire and the implication for filament nucleation
Structures of actin-bound Wiskott-Aldrich syndrome protein homology 2 (WH2) domains of Spire and the implication for filament nucleation Anna M. Duckaa, Peteranne Joelb, Grzegorz M. Popowicza, Kathleen M. Trybusb, Michael Schleicherc, Angelika A. Noegeld, Robert Hubera,e,f,1, Tad A. Holaka,1, and Tomasz Sitara,1 aMax-P...
3MNG
wild type human PrxV with DTT bound as a competitive inhibitor
Structural evidence that peroxiredoxin catalytic power is based on transition state stabilization Andrea Hall‡, Derek Parsonage§, Leslie B. Poole§, and P. Andrew Karplus‡,* ‡Department of Biochemistry and Biophysics, Oregon State University, Corvallis, OR 97331 §Department of Biochemistry, Wake Forest University School...
3MNH
Human Carbonic Anhydrase II Mutant K170A
Structural and Kinetic Study of the Extended Active Site for Proton Transfer in Human Carbonic Anhydrase II John F. Domsic‡,§, Wilton Williams‡, Suzanne Z. Fisher‡,∥, Chingkuang Tu⊥, Mavis Agbandje-McKenna‡, David N. Silverman‡,⊥,*, and Robert McKenna‡,* ‡Department of Biochemistry and Molecular Biology, University of ...
3MNI
Human Carbonic Anhydrase II Mutant K170D
Structural and Kinetic Study of the Extended Active Site for Proton Transfer in Human Carbonic Anhydrase II John F. Domsic‡,§, Wilton Williams‡, Suzanne Z. Fisher‡,∥, Chingkuang Tu⊥, Mavis Agbandje-McKenna‡, David N. Silverman‡,⊥,*, and Robert McKenna‡,* ‡Department of Biochemistry and Molecular Biology, University of ...
3MNJ
Human Carbonic Anhydrase II Mutant K170E
Structural and Kinetic Study of the Extended Active Site for Proton Transfer in Human Carbonic Anhydrase II John F. Domsic‡,§, Wilton Williams‡, Suzanne Z. Fisher‡,∥, Chingkuang Tu⊥, Mavis Agbandje-McKenna‡, David N. Silverman‡,⊥,*, and Robert McKenna‡,* ‡Department of Biochemistry and Molecular Biology, University of ...
3MNK
Human Carbonic Anhydrase II Mutant K170H
Structural and Kinetic Study of the Extended Active Site for Proton Transfer in Human Carbonic Anhydrase II John F. Domsic‡,§, Wilton Williams‡, Suzanne Z. Fisher‡,∥, Chingkuang Tu⊥, Mavis Agbandje-McKenna‡, David N. Silverman‡,⊥,*, and Robert McKenna‡,* ‡Department of Biochemistry and Molecular Biology, University of ...
3MNL
The crystal structure of KstR (Rv3574) from Mycobacterium tuberculosis H37Rv
The Structure of the Transcriptional Repressor KstR in Complex with CoA Thioester Cholesterol Metabolites Sheds Light on the Regulation of Cholesterol Catabolism in Mycobacterium tuberculosis* Received for publication,December 1, 2015, and in revised form, January 24, 2016 Published, JBC Papers in Press,February 8, 201...
3MNV
Crystal structure of the non-neutralizing HIV antibody 13H11 Fab fragment
Crystal structure of a non-neutralizing antibody to the HIV-1 gp41 membrane-proximal external region Nathan I Nicely1, S Moses Dennison1, Leonard Spicer2, Richard M Scearce1, Garnett Kelsoe3, Yoshihiro Ueda3, Haiyan Chen1, Hua-Xin Liao1, S Munir Alam1, and Barton F Haynes1 1Duke Human Vaccine Institute, Duke Univers...
3MO0
Human G9a-like (GLP, also known as EHMT1) in complex with inhibitor E11
ADDING A LYSINE MIMIC IN THE DESIGN OF POTENT INHIBITORS OF HISTONE LYSINE METHYLTRANSFERASES Yanqi Chang1,*, Thota Ganesh2,*, John R. Horton1, Astrid Spannhoff3, Jin Liu2, Aiming Sun2, Xing Zhang1, Mark T. Bedford3, Yoichi Shinkai4, James P. Snyder2, and Xiaodong Cheng1 1Department of Biochemistry, Emory University, A...
3MO2
human G9a-like (GLP, also known as EHMT1) in complex with inhibitor E67
ADDING A LYSINE MIMIC IN THE DESIGN OF POTENT INHIBITORS OF HISTONE LYSINE METHYLTRANSFERASES Yanqi Chang1,*, Thota Ganesh2,*, John R. Horton1, Astrid Spannhoff3, Jin Liu2, Aiming Sun2, Xing Zhang1, Mark T. Bedford3, Yoichi Shinkai4, James P. Snyder2, and Xiaodong Cheng1 1Department of Biochemistry, Emory University, A...
3MO4
The crystal structure of an alpha-(1-3,4)-fucosidase from Bifidobacterium longum subsp. infantis ATCC 15697
Bifidobacterium longum subsp. infantis ATCC 15697 -Fucosidases Are Active on Fucosylated Human Milk Oligosaccharides David A. Sela,a Daniel Garrido,b Larry Lerno,c Shuai Wu,c Kemin Tan,d Hyun-Ju Eom,e Andrzej Joachimiak,d Carlito B. Lebrilla,c and David A. Millse Microbiology Graduate Group, University of California, D...
3MO5
Human G9a-like (GLP, also known as EHMT1) in complex with inhibitor E72
ADDING A LYSINE MIMIC IN THE DESIGN OF POTENT INHIBITORS OF HISTONE LYSINE METHYLTRANSFERASES Yanqi Chang1,*, Thota Ganesh2,*, John R. Horton1, Astrid Spannhoff3, Jin Liu2, Aiming Sun2, Xing Zhang1, Mark T. Bedford3, Yoichi Shinkai4, James P. Snyder2, and Xiaodong Cheng1 1Department of Biochemistry, Emory University, A...
3MO7
Crystal structure of human orotidine 5'-monophosphate decarboxylase covalently modified by 2'-fluoro-6-iodo-UMP
Novel interactions of fluorinated nucleotide derivatives targeting orotidine-5′-monophosphate decarboxylase Melissa Lewis1, Maria Elena Meza Avina1,7, Lianhu Wei1, Ian E. Crandall5, Angelica Mara Bello1, Ewa Poduch1, Yan Liu4, Christopher J. Paige2,3, Kevin C. Kain6, Emil F. Pai1,2,4, and Lakshmi P. Kotra1,5,6,7,* 1 Ce...
3MO8
PWWP Domain of Human Bromodomain and PHD finger-containing protein 1 In Complex with Trimethylated H3K36 Peptide
Structural and Histone Binding Ability Characterizations of Human PWWP Domains Hong Wu1, Hong Zeng1, Robert Lam1, Wolfram Tempel1, Maria F. Amaya1, Chao Xu1, Ludmila Dombrovski1, Wei Qiu1, Yanming Wang2, Jinrong Min1,3* 1 Structural Genomics Consortium, University of Toronto, Toronto, Ontario, Canada, 2 Department of B...
3MOE
The structure of rat cytosolic PEPCK mutant A467G in complex with Beta-Sulfopyruvate and GTP
Increasing the conformational entropy of the Ω-loop lid domain in PEPCK impairs catalysis and decreases catalytic fidelity† Troy A. Johnson and Todd Holyoak* Department of Biochemistry and Molecular Biology. The University of Kansas Medical Center, Kansas City, KS 66160 Abstract Many studies have shown that the dynamic...
3MOF
The structure of rat cytosolic PEPCK mutant A467G in complex with oxalate and GTP
Increasing the conformational entropy of the Ω-loop lid domain in PEPCK impairs catalysis and decreases catalytic fidelity† Troy A. Johnson and Todd Holyoak* Department of Biochemistry and Molecular Biology. The University of Kansas Medical Center, Kansas City, KS 66160 Abstract Many studies have shown that the dynamic...
3MOH
The structure of rat cytosolic PEPCK mutant A467G in complex with phosphoglycolate and GDP
Increasing the conformational entropy of the Ω-loop lid domain in PEPCK impairs catalysis and decreases catalytic fidelity† Troy A. Johnson and Todd Holyoak* Department of Biochemistry and Molecular Biology. The University of Kansas Medical Center, Kansas City, KS 66160 Abstract Many studies have shown that the dynamic...
3MOJ
Structure of the RNA binding domain of the Bacillus subtilis YxiN protein complexed with a fragment of 23S ribosomal RNA
Structure of the RNA binding domain of a DEAD-box helicase bound to its ribosomal RNA target reveals a novel mode of recognition by an RNA recognition motif John W. Hardin1, YaoXiong Hu3, and David B. McKay1,2,* 1Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO 80301, USA 2Howard Hughes Med...
3MOK
Structure of Apo HasAp from Pseudomonas aeruginosa to 1.55A Resolution
Structural, NMR Spectroscopic and Computational Investigation of Hemin Loading in the Hemophore HasAp from Pseudomonas aeruginosa Grace Jepkorir†, Juan Carlos Rodríguez†, Huan Rui‡, Wonpil Im‡, Scott Lovell§, Kevin P. Battaile£, Aileen Y. Alontaga†, Erik T. YuklΔ, Pierre Moënne-LoccozΔ, and Mario Rivera*,† † Department...
3MOL
Structure of dimeric holo HasAp H32A Mutant from Pseudomonas aeruginosa to 1.20A Resolution
Structural, NMR Spectroscopic and Computational Investigation of Hemin Loading in the Hemophore HasAp from Pseudomonas aeruginosa Grace Jepkorir†, Juan Carlos Rodríguez†, Huan Rui‡, Wonpil Im‡, Scott Lovell§, Kevin P. Battaile£, Aileen Y. Alontaga†, Erik T. YuklΔ, Pierre Moënne-LoccozΔ, and Mario Rivera*,† † Department...
3MOM
Structure of holo HasAp H32A mutant complexed with imidazole from Pseudomonas aeruginosa to 2.25A Resolution
Structural, NMR Spectroscopic and Computational Investigation of Hemin Loading in the Hemophore HasAp from Pseudomonas aeruginosa Grace Jepkorir†, Juan Carlos Rodríguez†, Huan Rui‡, Wonpil Im‡, Scott Lovell§, Kevin P. Battaile£, Aileen Y. Alontaga†, Erik T. YuklΔ, Pierre Moënne-LoccozΔ, and Mario Rivera*,† † Department...
3MOP
The ternary Death Domain complex of MyD88, IRAK4, and IRAK2
Helical assembly in the MyD88:IRAK4:IRAK2 complex in TLR/ IL-1R signaling Su-Chang Lin, Yu-Chih Lo, and Hao Wu* Department of Biochemistry, Weill Cornell Medical College, New York, NY 10021 Abstract MyD88, IRAK4 and IRAK2 are critical signaling mediators of the TLR/IL1-R superfamily. Here we report the crystal structu...
3MOQ
Amyloid beta(18-41) peptide fusion with new antigen receptor variable domain from sharks
Cellular/Molecular Crystal Structure of the Amyloid- p3 Fragment Provides a Model for Oligomer Formation in Alzheimer’s Disease Victor A. Streltsov,1 Joseph N. Varghese,1 Colin L. Masters,2 and Stewart D. Nuttall1 1Commonwealth Scientific and Industrial Research Organization Materials Science and Engineering, and Prev...
3MOR
Crystal structure of Cathepsin B from Trypanosoma Brucei
In vivo protein crystallization opens new routes in structural biology Rudolf Koopmann1,22, Karolina Cupelli1,22, Lars Redecke2,22, Karol Nass3, Daniel P DePonte4, Thomas A White4, Francesco Stellato4, Dirk Rehders2, Mengning Liang4, Jakob Andreasson5, Andrew Aquila4,21, Sasa Bajt6, Miriam Barthelmess6, Anton Barty4, M...
3MOS
The structure of human Transketolase
The Crystal Structure of Human Transketolase and New Insights into Its Mode of Action* Received for publication,May 31, 2010, and in revised form, July 14, 2010 Published, JBC Papers in Press,July 28, 2010, DOI 10.1074/jbc.M110.149955 Lars Mitschke‡1, Christoph Parthier‡1, Kathrin Schro¨der-Tittmann‡, Johannes Coy§, St...
3MOY
Crystal structure of probable enoyl-CoA hydratase from Mycobacterium smegmatis
Increasing the Structural Coverage of Tuberculosis Drug Targets Loren Baugha,b, Isabelle Phana,b, Darren W. Begleya,c, Matthew C. Cliftona,c, Brianna Armoura,c, David M. Dranowa,c, Brandy M. Taylora,c, Marvin M. Muruthia,c, Jan Abendrotha,c, James W. Fairmanc, David Fox IIIc, Shellie H. Dieterichc, Bart L. Stakera,b,...
3MOZ
Structure of the PTP-like phytase from Selenomonas ruminantium in complex with myo-inositol (1,2,3,5,6)pentakisphosphate
Substrate Binding in Protein-tyrosine Phosphatase-like Inositol Polyphosphatases*□ S Received for publication,October 19, 2011, and in revised form, November 30, 2011 Published, JBC Papers in Press,December 2, 2011, DOI 10.1074/jbc.M111.309872 Robert J. Gruninger‡, Selina Dobing‡, Adam D. Smith‡, Lisza M. Bruder‡, L. B...
3MP1
Complex structure of Sgf29 and trimethylated H3K4
Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation Chuanbing Bian1,2,8, Chao Xu2,8, Jianbin Ruan1,8, Kenneth K Lee3,8, Tara L Burke4,8, Wolfram Tempel2, Dalia Barsyte2, Jing Li1, Minhao Wu1, Bo O Zhou5, Brian E Fleharty3, Ariel Paulson3, Abdellah Allali-Hassani2, Jin-Q...
3MP2
Crystal structure of transmissible gastroenteritis virus papain-like protease 1
JOURNAL OF VIROLOGY, Oct. 2010, p. 10063–10073 Vol. 84, No. 19 0022-538X/10/$12.00 doi:10.1128/JVI.00898-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Papain-Like Protease 1 from Transmissible Gastroenteritis Virus: Crystal Structure and Enzymatic Activity toward Viral and Cellular Substr...
3MP3
Crystal Structure of Human Lyase in complex with inhibitor HG-CoA
Functional Insights into Human HMG-CoA Lyase from Structures of Acyl-CoA-containing Ternary Complexes* Received for publication,April 30, 2010, and in revised form, June 5, 2010 Published, JBC Papers in Press,June 17, 2010, DOI 10.1074/jbc.M110.139931 Zhuji Fu‡, Jennifer A. Runquist‡1, Christa Montgomery§, Henry M. Miz...
3MP4
Crystal structure of Human lyase R41M mutant
Functional Insights into Human HMG-CoA Lyase from Structures of Acyl-CoA-containing Ternary Complexes* Received for publication,April 30, 2010, and in revised form, June 5, 2010 Published, JBC Papers in Press,June 17, 2010, DOI 10.1074/jbc.M110.139931 Zhuji Fu‡, Jennifer A. Runquist‡1, Christa Montgomery§, Henry M. Miz...
3MP5
Crystal Structure of Human Lyase R41M in complex with HMG-CoA
Functional Insights into Human HMG-CoA Lyase from Structures of Acyl-CoA-containing Ternary Complexes* Received for publication,April 30, 2010, and in revised form, June 5, 2010 Published, JBC Papers in Press,June 17, 2010, DOI 10.1074/jbc.M110.139931 Zhuji Fu‡, Jennifer A. Runquist‡1, Christa Montgomery§, Henry M. Miz...
3MP6
Complex Structure of Sgf29 and dimethylated H3K4
Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation Chuanbing Bian1,2,8, Chao Xu2,8, Jianbin Ruan1,8, Kenneth K Lee3,8, Tara L Burke4,8, Wolfram Tempel2, Dalia Barsyte2, Jing Li1, Minhao Wu1, Bo O Zhou5, Brian E Fleharty3, Ariel Paulson3, Abdellah Allali-Hassani2, Jin-Q...
3MP7
Lateral opening of a translocon upon entry of protein suggests the mechanism of insertion into membranes
Lateral opening of a translocon upon entry of protein suggests the mechanism of insertion into membranes Pascal F. Egeaa and Robert M. Stroudb,1 aDepartment of Biological Chemistry, University of California, Los Angeles, CA 90095; and bDepartment of Biochemistry and Biophysics, University of California, San Francisco, ...
3MP8
Crystal structure of Sgf29 tudor domain
Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation Chuanbing Bian1,2,8, Chao Xu2,8, Jianbin Ruan1,8, Kenneth K Lee3,8, Tara L Burke4,8, Wolfram Tempel2, Dalia Barsyte2, Jing Li1, Minhao Wu1, Bo O Zhou5, Brian E Fleharty3, Ariel Paulson3, Abdellah Allali-Hassani2, Jin-Q...
3MPC
The crystal structure of a Fn3-like protein from Clostridium thermocellum
structural communications 878 doi:10.1107/S1744309110022529 Acta Cryst. (2010). F66, 878–880 Acta Crystallographica Section F Structural Biology and Crystallization Communications ISSN 1744-3091 Structure of a fibronectin type III-like module from Clostridium thermocellum Markus Alahuhta, Qi Xu, Roman Brunecky, William...
3MPG
Dihydroorotase from Bacillus anthracis
structural communications 1432 doi:10.1107/S1744309110037085 Acta Cryst. (2010). F66, 1432–1435 Acta Crystallographica Section F Structural Biology and Crystallization Communications ISSN 1744-3091 Structure of dihydroorotase from Bacillus anthracis at 2.6 A˚ resolution Shahila Mehboob, Debbie C. Mulhearn, Kent Truong,...
3MPK
Crystal Structure of Bordetella pertussis BvgS periplasmic VFT2 domain
Periplasmic domain of the sensor-kinase BvgS reveals a new paradigm for the Venus flytrap mechanism Julien Herroua,b,c,d, Coralie Bomparde,1, René Wintjense,f,1, Elian Dupréa,b,c,d,1, Eve Willerya,b,c,d, Vincent Villerete, Camille Lochta,b,c,d, Rudy Antoinea,b,c,d,2, and Françoise Jacob-Dubuissona,b,c,d,2,3 aInstitut Na...
3MPL
Crystal Structure of Bordetella pertussis BvgS VFT2 domain (Double Mutant F375E/Q461E)
Periplasmic domain of the sensor-kinase BvgS reveals a new paradigm for the Venus flytrap mechanism Julien Herroua,b,c,d, Coralie Bomparde,1, René Wintjense,f,1, Elian Dupréa,b,c,d,1, Eve Willerya,b,c,d, Vincent Villerete, Camille Lochta,b,c,d, Rudy Antoinea,b,c,d,2, and Françoise Jacob-Dubuissona,b,c,d,2,3 aInstitut Na...
3MPN
F177R1 mutant of LeuT
Structural origins of nitroxide side chain dynamics on membrane protein α-helical sites Brett M. Kroncke‡, Peter S. Horanyi§, and Linda Columbus*,‡ Department of Chemistry and Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA, 22904 Abstract Understanding the structu...
3MPP
Botulinum Neurotoxin Type G Receptor Binding Domain
A Structural Analysis of Botulinum Neurotoxin Type G Receptor Binding John Schmitt, Andrew Karalewitz, Desirée A. Benefield, Darren J. Mushrush, Rory N. Pruitt, Benjamin W. Spiller, Joseph T. Barbieri*, and D. Borden Lacy* Departments of Microbiology and Immunology, Biochemistry, Pharmacology, Vanderbilt University Sch...
3MPQ
I204R1 mutant of LeuT
Structural origins of nitroxide side chain dynamics on membrane protein α-helical sites Brett M. Kroncke‡, Peter S. Horanyi§, and Linda Columbus*,‡ Department of Chemistry and Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA, 22904 Abstract Understanding the structu...
3MPU
Crystal structure of the C47A/A241C disulfide-linked E. coli Aspartate Transcarbamoylase holoenzyme
The Pathway of Product Release from the R State of Aspartate Transcarbamoylase Kimberly R. Mendes and Evan R. Kantrowitz* Department of Chemistry, Boston College, Merkert Chemistry Center, Chestnut Hill, MA 02467-3807 Abstract The pathway of product release from the R state of aspartate transcarbamoylase has been deter...
3MPV
Structure of EUTL in the zinc-induced open form
JOURNAL OF BACTERIOLOGY, Nov. 2010, p. 6056–6063 Vol. 192, No. 22 0021-9193/10/$12.00 doi:10.1128/JB.00652-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Crystallographic Insights into the Pore Structures and Mechanisms of the EutL and EutM Shell Proteins of the Ethanolamine-Utilizing Micr...
3MPW
Structure of EUTM in 2-D protein membrane
JOURNAL OF BACTERIOLOGY, Nov. 2010, p. 6056–6063 Vol. 192, No. 22 0021-9193/10/$12.00 doi:10.1128/JB.00652-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Crystallographic Insights into the Pore Structures and Mechanisms of the EutL and EutM Shell Proteins of the Ethanolamine-Utilizing Micr...
3MPY
Structure of EUTM in 2-D protein membrane
JOURNAL OF BACTERIOLOGY, Nov. 2010, p. 6056–6063 Vol. 192, No. 22 0021-9193/10/$12.00 doi:10.1128/JB.00652-10 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Crystallographic Insights into the Pore Structures and Mechanisms of the EutL and EutM Shell Proteins of the Ethanolamine-Utilizing Micr...
3MPZ
Crystal structure of CYTIDINE DEAMINASE from Mycobacterium smegmatis
Increasing the Structural Coverage of Tuberculosis Drug Targets Loren Baugha,b, Isabelle Phana,b, Darren W. Begleya,c, Matthew C. Cliftona,c, Brianna Armoura,c, David M. Dranowa,c, Brandy M. Taylora,c, Marvin M. Muruthia,c, Jan Abendrotha,c, James W. Fairmanc, David Fox IIIc, Shellie H. Dieterichc, Bart L. Stakera,b,...
3MQ0
Crystal Structure of Agobacterium tumefaciens repressor BlcR
The Agrobacterium tumefaciens Transcription Factor BlcR Is Regulated via Oligomerization*□ S Received for publication,October 20, 2010, and in revised form, March 17, 2011 Published, JBC Papers in Press,April 4, 2011, DOI 10.1074/jbc.M110.196154 Yi Pan‡, Valena Fiscus§, Wuyi Meng¶, Zhida Zheng‡, Lian-Hui Zhang, Clay F...
3MQ1
Crystal Structure of Dust Mite Allergen Der p 5
Der p 5 Crystal Structure Provides Insight into the Group 5 Dust Mite Allergens* Received for publication,March 29, 2010, and in revised form, May 7, 2010 Published, JBC Papers in Press,June 9, 2010, DOI 10.1074/jbc.M110.128306 Geoffrey A. Mueller‡1, Rajendrakumar A. Gosavi‡, Joseph M. Krahn‡2, Lori L. Edwards§, Matthe...
3MQ2
Crystal Structure of 16S rRNA Methyltranferase KamB
Structural insights into the function of aminoglycoside-resistance A1408 16S rRNA methyltransferases from antibiotic-producing and human pathogenic bacteria Rachel Macmaster1,2, Natalia Zelinskaya1, Miloje Savic1, C. Robert Rankin1 and Graeme L. Conn1,* 1Department of Biochemistry, Emory University School of Medicine, ...
3MQ6
Domain swapped SgrAI with DNA and calcium bound
Domain Swapping in Allosteric Modulation of DNA Specificity Chad K. Park1, Hemant K. Joshi1¤a, Alka Agrawal2, M. Imran Ghare1, Elizabeth J. Little1¤b, Pete W. Dunten3, Jurate Bitinaite2, Nancy C. Horton1* 1 Department of Chemistry and Biochemistry, University of Arizona, Tucson, Arizona, United States of America, 2 New...
3MQ7
Crystal Structure of Ectodomain Mutant of BST-2/Tetherin/CD317
Structural insight into the mechanisms of enveloped virus tethering by tetherin Haitao Yanga,1, Jimin Wanga,1, Xiaofei Jiaa, Matthew W. McNattb, Trinity Zangb, Baocheng Pana, Wuyi Menga, Hong-Wei Wanga, Paul D. Bieniaszb, and Yong Xionga,2 aDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven...
3MQ9
Crystal Structure of Ectodomain Mutant of BST-2/Tetherin/CD317 Fused to MBP
Structural insight into the mechanisms of enveloped virus tethering by tetherin Haitao Yanga,1, Jimin Wanga,1, Xiaofei Jiaa, Matthew W. McNattb, Trinity Zangb, Baocheng Pana, Wuyi Menga, Hong-Wei Wanga, Paul D. Bieniaszb, and Yong Xionga,2 aDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven...