The Structural Basis of Ribosome Activity . . . (2003)
D. Moazed, J. M. Roberston, H. F. Noller, C. C. Correll, B. Freeborn, P. B. Moore, ...
H. G. Wittmann, FEBS Lett. 184, 68 (1985). 54. K. vanBohlen et al., J. Mol. Biol. 222, 11 (1991). 55. Z. Otwinowski, in Data Collection and Processing,L. Sawyer, N. Isaacs, D. Bailey, Eds. (SERC...
The structure of a CAP–DNA complex having two cAMP molecules bound to each monomer
The 2.2 Å resolution crystal structure of the Escherichia coli catabolite gene activator protein (CAP) complexed with cAMP and a 46-bp DNA fragment reveals a second cAMP molecule bound to each...
Smerdon, S J, Jäger, J, Wang, J, Kohlstaedt, L A, Chirino, A J, Friedman, J M, ...
The dipyridodiazepinone Nevirapine is a potent and highly specific inhibitor of the reverse transcriptase (RT) from human immunodeficiency virus type 1 (HIV-1). It is a member of an important class...
Wang, J, Smerdon, S J, Jäger, J, Kohlstaedt, L A, Rice, P A, Friedman, J M, ...
The reverse transcriptase from human immunodeficiency virus type 1 is a heterodimer consisting of one 66-kDa and one 51-kDa subunit. The p66 subunit contains both a polymerase and an RNase H domain;...
Sun, W, Tormo, J, Steitz, T A, Godson, G N
Endoproteinase Asp-N cleaves the 581-amino acid Escherichia coli primase (65,564 Da) into several major fragments. One of these, a 47-kDa fragment containing the complete N terminus and the first 422...
A general two-metal-ion mechanism for catalytic RNA.
A mechanism is proposed for the RNA-catalyzed reactions involved in RNA splicing and RNase P hydrolysis of precursor tRNA. The mechanism postulates that chemical catalysis is facilitated by two...
Although the reverse transcriptase (RT) of human immunodeficiency virus (HIV) uses human tRNA(3Lys) as a primer of viral genome DNA synthesis in vivo, HIV RT binds Escherichia coli glutamine tRNA and...
Kriwacki, R W, Schultz, S C, Steitz, T A, Caradonna, J P
We have overexpressed and purified two peptide fragments of Sp1 that contain the three "zinc-finger" domains necessary for specific Sp1 DNA binding. These peptides assume a stable, folded...
Perona, J J, Rould, M A, Steitz, T A, Risler, J L, Zelwer, C, Brunie, S
Detailed comparisons between the structures of the tRNA-bound Escherichia coli glutaminyl-tRNA (Gln-tRNA) synthetase [L-glutamine:tRNA(Gln) ligase (AMP-forming), EC 6.1.1.18] and recently refined E....
Molecular characterization of the GCN4-DNA complex.
Gartenberg, M R, Ampe, C, Steitz, T A, Crothers, D M
We report studies of the DNA complex formed by GCN4, a transcriptional activator of eukaryotic amino acid biosynthetic operons. The DNA thermodynamic binding domain, defined by primer extension...
The kink-turn: a new RNA secondary structure motif
Klein, D.J., Schmeing, T.M., Moore, P.B., Steitz, T.A.
Analysis of the Haloarcula marismortui large ribosomal subunit has revealed a common RNA structure that we call the kink-turn, or K-turn. The six K-turns in H.marismortui 23S rRNA superimpose with an...
CARBOXYPEPTIDASE A, II. THE THREE-DIMENSIONAL ELECTRON DENSITY MAP AT 6 Å RESOLUTION*
Hartsuck, J. A., Ludwig, M. L., Muirhead, H., Steitz, T. A., Lipscomb, W. N.
Cocrystal structure of an editing complex of Klenow fragment with DNA.
Freemont, P S, Friedman, J M, Beese, L S, Sanderson, M R, Steitz, T A
High-resolution crystal structures of editing complexes of both duplex and single-stranded DNA bound to Escherichia coli DNA polymerase I large fragment (Klenow fragment) show four nucleotides of...
DiGabriele, A D, Sanderson, M R, Steitz, T A
The crystal structure of a DNA duplex dodecamer d(CGCAAAAATGCG) and its complementary strand has been determined at 2.6-A resolution. Although our goal was to deduce the structural features of the...
Inspection of the structure of the C-terminal domain of ribosomal protein L7/L12 (1) reveals a helix-turn-helix motif similar to the one found in many DNA-binding regulatory proteins (2-5). The 19...
A model for the non-specific binding of catabolite gene activator protein to DNA.
The binding of E. coli catabolite gene activator protein (CAP) to non-specific sequences of DNA has been modelled as an electrostatic interaction between four basic side chains of the CAP dimer and...
Two helix DNA binding motif of CAP found in lac repressor and gal repressor.
Weber, I T, McKay, D B, Steitz, T A
Comparison of both the DNA and protein sequences of catabolite gene activator protein (CAP) with the sequences of lac and gal repressors shows significant homologies between a sequence that forms a...
Glucose-induced conformational change in yeast hexokinase.
The A isozyme of yeast hexokinase (ATP:D-hexose 6-phosphotransferase, EC 2.7.1.1) crystallized as a complex with glucose has a conformation that is dramatically different from the conformation of the...
Calculation of the electrostatic potential energy surfaces of Escherichia coli catabolite gene activator protein (CAP) dimer suggests a model for the complex between CAP and a specific DNA sequence....
Abdel-Meguid, S S, Grindley, N D, Templeton, N S, Steitz, T A
The 20,500-dalton gamma delta resolvase monomer can be cleaved by chymotrypsin into a 5000-dalton COOH-terminal fragment and a 15,500-dalton NH2-terminal fragment that have been purified. Two crystal...
Steitz, T A, Ohlendorf, D H, McKay, D B, Anderson, W F, Matthews, B W
It is shown that there is a structural similarity between the presumed DNA-binding regions of the Escherichia coli catabolite gene activator protein ("CAP") and the cro repressor protein ("cro") from...
Weber, I T, Takio, K, Titani, K, Steitz, T A
Comparison of the recently determined amino acid sequences of the regulatory subunit of cAMP-dependent protein kinase (RII) from bovine cardiac muscle and the Escherichia coli catabolite gene...
The packing arrangement of the 12 subunits of intact gamma delta resolvase in the unit cell of a hexagonal crystal form suggests a model for site-specific recombination that involves a DNA-mediated...
The crystal structure of elongation factor G complexed with GDP, at 2.7 A resolution.
Czworkowski, J, Wang, J, Steitz, T A, Moore, P B
Elongation factor G (EF-G) catalyzes the translocation step of protein synthesis in bacteria, and like the other bacterial elongation factor, EF-Tu--whose structure is already known--it is a member...
Hughes, R E, Rice, P A, Steitz, T A, Grindley, N D
Recombination catalyzed by the gamma delta resolvase requires assembly of a nucleo-protein complex, the synaptosome, whose structure is determined by resolvase-res and resolvase-resolvase...
The structure of a yeast hexokinase monomer and its complexes with substrates at 2.7-A resolution.
Fletterick, R J, Bates, D J, Steitz, T A
From a 2.7-A resolution electron density map we have built a model of the polypeptide backbone of a monomer of yeast hexokinase B (EC 2.7.1.1). This map was obtained from a third crystal form of...
Tormo, J, Lamed, R, Chirino, A J, Morag, E, Bayer, E A, Shoham, Y, ...
The crystal structure of a family-III cellulose-binding domain (CBD) from the cellulosomal scaffoldin subunit of Clostridium thermocellum has been determined at 1.75 A resolution. The protein forms a...
The refined crystal structures of the large proteolytic fragment (Klenow fragment) of Escherichia coli DNA polymerase I and its complexes with a deoxynucleoside monophosphate product and a...
Structure of T7 RNA polymerase complexed to the transcriptional inhibitor T7 lysozyme.
The T7 RNA polymerase-T7 lysozyme complex regulates phage gene expression during infection of Escherichia coli. The 2.8 A crystal structure of the complex reveals that lysozyme binds at a site remote...
The structure of HIV-1 reverse transcriptase complexed with an RNA pseudoknot inhibitor.
Jaeger, J, Restle, T, Steitz, T A
Small RNA pseudoknots, selected to bind human immunodeficiency virus type 1 (HIV-1) reverse transcriptase tightly, are potent inhibitors of reverse transcriptase. The co-crystal structure of reverse...
Comparison of the crystal and solution structures of two RNA oligonucleotides.
Rife, J P, Stallings, S C, Correll, C C, Dallas, A, Steitz, T A, Moore, P B
Until recently, there were no examples of RNAs whose structures had been determined by both NMR and x-ray crystallography, and thus there was no experimental basis for assessing the accuracy of RNA...
The structure of a CAP–DNA complex having two cAMP molecules bound to each monomer
The 2.2 Å resolution crystal structure of the Escherichia coli catabolite gene activator protein (CAP) complexed with cAMP and a 46-bp DNA fragment reveals a second cAMP molecule bound to each...
Smerdon, S J, Jäger, J, Wang, J, Kohlstaedt, L A, Chirino, A J, Friedman, J M, ...
The dipyridodiazepinone Nevirapine is a potent and highly specific inhibitor of the reverse transcriptase (RT) from human immunodeficiency virus type 1 (HIV-1). It is a member of an important class...
Wang, J, Smerdon, S J, Jäger, J, Kohlstaedt, L A, Rice, P A, Friedman, J M, ...
The reverse transcriptase from human immunodeficiency virus type 1 is a heterodimer consisting of one 66-kDa and one 51-kDa subunit. The p66 subunit contains both a polymerase and an RNase H domain;...
Sun, W, Tormo, J, Steitz, T A, Godson, G N
Endoproteinase Asp-N cleaves the 581-amino acid Escherichia coli primase (65,564 Da) into several major fragments. One of these, a 47-kDa fragment containing the complete N terminus and the first 422...
A general two-metal-ion mechanism for catalytic RNA.
A mechanism is proposed for the RNA-catalyzed reactions involved in RNA splicing and RNase P hydrolysis of precursor tRNA. The mechanism postulates that chemical catalysis is facilitated by two...
Although the reverse transcriptase (RT) of human immunodeficiency virus (HIV) uses human tRNA(3Lys) as a primer of viral genome DNA synthesis in vivo, HIV RT binds Escherichia coli glutamine tRNA and...
Kriwacki, R W, Schultz, S C, Steitz, T A, Caradonna, J P
We have overexpressed and purified two peptide fragments of Sp1 that contain the three "zinc-finger" domains necessary for specific Sp1 DNA binding. These peptides assume a stable, folded...
Perona, J J, Rould, M A, Steitz, T A, Risler, J L, Zelwer, C, Brunie, S
Detailed comparisons between the structures of the tRNA-bound Escherichia coli glutaminyl-tRNA (Gln-tRNA) synthetase [L-glutamine:tRNA(Gln) ligase (AMP-forming), EC 6.1.1.18] and recently refined E....
Molecular characterization of the GCN4-DNA complex.
Gartenberg, M R, Ampe, C, Steitz, T A, Crothers, D M
We report studies of the DNA complex formed by GCN4, a transcriptional activator of eukaryotic amino acid biosynthetic operons. The DNA thermodynamic binding domain, defined by primer extension...
The kink-turn: a new RNA secondary structure motif
Klein, D.J., Schmeing, T.M., Moore, P.B., Steitz, T.A.
Analysis of the Haloarcula marismortui large ribosomal subunit has revealed a common RNA structure that we call the kink-turn, or K-turn. The six K-turns in H.marismortui 23S rRNA superimpose with an...
CARBOXYPEPTIDASE A, II. THE THREE-DIMENSIONAL ELECTRON DENSITY MAP AT 6 Å RESOLUTION*
Hartsuck, J. A., Ludwig, M. L., Muirhead, H., Steitz, T. A., Lipscomb, W. N.
Cocrystal structure of an editing complex of Klenow fragment with DNA.
Freemont, P S, Friedman, J M, Beese, L S, Sanderson, M R, Steitz, T A
High-resolution crystal structures of editing complexes of both duplex and single-stranded DNA bound to Escherichia coli DNA polymerase I large fragment (Klenow fragment) show four nucleotides of...
DiGabriele, A D, Sanderson, M R, Steitz, T A
The crystal structure of a DNA duplex dodecamer d(CGCAAAAATGCG) and its complementary strand has been determined at 2.6-A resolution. Although our goal was to deduce the structural features of the...
Inspection of the structure of the C-terminal domain of ribosomal protein L7/L12 (1) reveals a helix-turn-helix motif similar to the one found in many DNA-binding regulatory proteins (2-5). The 19...
A model for the non-specific binding of catabolite gene activator protein to DNA.
The binding of E. coli catabolite gene activator protein (CAP) to non-specific sequences of DNA has been modelled as an electrostatic interaction between four basic side chains of the CAP dimer and...
Two helix DNA binding motif of CAP found in lac repressor and gal repressor.
Weber, I T, McKay, D B, Steitz, T A
Comparison of both the DNA and protein sequences of catabolite gene activator protein (CAP) with the sequences of lac and gal repressors shows significant homologies between a sequence that forms a...
Glucose-induced conformational change in yeast hexokinase.
The A isozyme of yeast hexokinase (ATP:D-hexose 6-phosphotransferase, EC 2.7.1.1) crystallized as a complex with glucose has a conformation that is dramatically different from the conformation of the...
Calculation of the electrostatic potential energy surfaces of Escherichia coli catabolite gene activator protein (CAP) dimer suggests a model for the complex between CAP and a specific DNA sequence....
Abdel-Meguid, S S, Grindley, N D, Templeton, N S, Steitz, T A
The 20,500-dalton gamma delta resolvase monomer can be cleaved by chymotrypsin into a 5000-dalton COOH-terminal fragment and a 15,500-dalton NH2-terminal fragment that have been purified. Two crystal...
Steitz, T A, Ohlendorf, D H, McKay, D B, Anderson, W F, Matthews, B W
It is shown that there is a structural similarity between the presumed DNA-binding regions of the Escherichia coli catabolite gene activator protein ("CAP") and the cro repressor protein ("cro") from...
Weber, I T, Takio, K, Titani, K, Steitz, T A
Comparison of the recently determined amino acid sequences of the regulatory subunit of cAMP-dependent protein kinase (RII) from bovine cardiac muscle and the Escherichia coli catabolite gene...
The packing arrangement of the 12 subunits of intact gamma delta resolvase in the unit cell of a hexagonal crystal form suggests a model for site-specific recombination that involves a DNA-mediated...
The crystal structure of elongation factor G complexed with GDP, at 2.7 A resolution.
Czworkowski, J, Wang, J, Steitz, T A, Moore, P B
Elongation factor G (EF-G) catalyzes the translocation step of protein synthesis in bacteria, and like the other bacterial elongation factor, EF-Tu--whose structure is already known--it is a member...
Hughes, R E, Rice, P A, Steitz, T A, Grindley, N D
Recombination catalyzed by the gamma delta resolvase requires assembly of a nucleo-protein complex, the synaptosome, whose structure is determined by resolvase-res and resolvase-resolvase...
The structure of a yeast hexokinase monomer and its complexes with substrates at 2.7-A resolution.
Fletterick, R J, Bates, D J, Steitz, T A
From a 2.7-A resolution electron density map we have built a model of the polypeptide backbone of a monomer of yeast hexokinase B (EC 2.7.1.1). This map was obtained from a third crystal form of...
Tormo, J, Lamed, R, Chirino, A J, Morag, E, Bayer, E A, Shoham, Y, ...
The crystal structure of a family-III cellulose-binding domain (CBD) from the cellulosomal scaffoldin subunit of Clostridium thermocellum has been determined at 1.75 A resolution. The protein forms a...
The refined crystal structures of the large proteolytic fragment (Klenow fragment) of Escherichia coli DNA polymerase I and its complexes with a deoxynucleoside monophosphate product and a...
Structure of T7 RNA polymerase complexed to the transcriptional inhibitor T7 lysozyme.
The T7 RNA polymerase-T7 lysozyme complex regulates phage gene expression during infection of Escherichia coli. The 2.8 A crystal structure of the complex reveals that lysozyme binds at a site remote...
The structure of HIV-1 reverse transcriptase complexed with an RNA pseudoknot inhibitor.
Jaeger, J, Restle, T, Steitz, T A
Small RNA pseudoknots, selected to bind human immunodeficiency virus type 1 (HIV-1) reverse transcriptase tightly, are potent inhibitors of reverse transcriptase. The co-crystal structure of reverse...
Comparison of the crystal and solution structures of two RNA oligonucleotides.
Rife, J P, Stallings, S C, Correll, C C, Dallas, A, Steitz, T A, Moore, P B
Until recently, there were no examples of RNAs whose structures had been determined by both NMR and x-ray crystallography, and thus there was no experimental basis for assessing the accuracy of RNA...