1AF5
 
 | | GROUP I MOBILE INTRON ENDONUCLEASE | | Descriptor: | I-CREI | | Authors: | Heath, P.J, Stephens, K.M, Monnat Junior, R.J, Stoddard, B.L. | | Deposit date: | 1997-03-21 | | Release date: | 1997-07-23 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The structure of I-Crel, a group I intron-encoded homing endonuclease.
Nat.Struct.Biol., 4, 1997
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8EIL
 | | C-Terminal Domain of BrxL from Acinetobacter BREX type I phage restriction system | | Descriptor: | MALONIC ACID, Protease Lon-related BREX system protein BrxL, SUCCINIC ACID | | Authors: | Doyle, L.A, Stoddard, B.L, Kaiser, B. | | Deposit date: | 2022-09-15 | | Release date: | 2023-02-22 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Structure, substrate binding and activity of a unique AAA+ protein: the BrxL phage restriction factor.
Nucleic Acids Res., 51, 2023
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8EM1
 | | Type IIS Restriction Endonuclease PaqCI, DNA Unbound | | Descriptor: | 1,2-ETHANEDIOL, PaqCI, DNA Unbound | | Authors: | Kennedy, M.A, Stoddard, B.L. | | Deposit date: | 2022-09-26 | | Release date: | 2023-03-22 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structures, activity and mechanism of the Type IIS restriction endonuclease PaqCI.
Nucleic Acids Res., 51, 2023
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8EPX
 | | Type IIS Restriction Endonuclease PaqCI, DNA bound | | Descriptor: | CALCIUM ION, DNA 1a, DNA 1b, ... | | Authors: | Kennedy, M.A, Stoddard, B.L. | | Deposit date: | 2022-10-06 | | Release date: | 2023-03-22 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (3.15 Å) | | Cite: | Structures, activity and mechanism of the Type IIS restriction endonuclease PaqCI.
Nucleic Acids Res., 51, 2023
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8ETQ
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8FLX
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1BP7
 | | GROUP I MOBILE INTRON ENDONUCLEASE I-CREI COMPLEXED WITH HOMING SITE DNA | | Descriptor: | CALCIUM ION, DNA (5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP* GP*C)-3'), DNA (5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP* CP*G)-3'), ... | | Authors: | Jurica, M.S, Monnat Junior, R.J, Stoddard, B.L. | | Deposit date: | 1998-08-13 | | Release date: | 1999-01-06 | | Last modified: | 2023-08-02 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | DNA recognition and cleavage by the LAGLIDADG homing endonuclease I-CreI.
Mol.Cell, 2, 1998
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1A3W
 | | PYRUVATE KINASE FROM SACCHAROMYCES CEREVISIAE COMPLEXED WITH FBP, PG, MN2+ AND K+ | | Descriptor: | 1,6-di-O-phosphono-beta-D-fructofuranose, 2-PHOSPHOGLYCOLIC ACID, MANGANESE (II) ION, ... | | Authors: | Jurica, M.S, Mesecar, A, Heath, P.J, Shi, W, Nowak, T, Stoddard, B.L. | | Deposit date: | 1998-01-26 | | Release date: | 1998-05-27 | | Last modified: | 2024-05-22 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The allosteric regulation of pyruvate kinase by fructose-1,6-bisphosphate.
Structure, 6, 1998
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1B0A
 | | 5,10, METHYLENE-TETRAHYDROPHOLATE DEHYDROGENASE/CYCLOHYDROLASE FROM E COLI. | | Descriptor: | PROTEIN (FOLD BIFUNCTIONAL PROTEIN) | | Authors: | Shen, B.W, Dyer, D, Huang, J.-Y, D'Ari, L, Rabinowitz, J, Stoddard, B.L. | | Deposit date: | 1998-11-06 | | Release date: | 1999-06-29 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.56 Å) | | Cite: | The crystal structure of a bacterial, bifunctional 5,10 methylene-tetrahydrofolate dehydrogenase/cyclohydrolase.
Protein Sci., 8, 1999
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1A3X
 | | PYRUVATE KINASE FROM SACCHAROMYCES CEREVISIAE COMPLEXED WITH PG, MN2+ AND K+ | | Descriptor: | 2-PHOSPHOGLYCOLIC ACID, MANGANESE (II) ION, POTASSIUM ION, ... | | Authors: | Jurica, M.S, Mesecar, A, Heath, P.J, Shi, W, Nowak, T, Stoddard, B.L. | | Deposit date: | 1998-01-26 | | Release date: | 1998-05-27 | | Last modified: | 2024-07-10 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The allosteric regulation of pyruvate kinase by fructose-1,6-bisphosphate.
Structure, 6, 1998
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3KO2
 | | I-MsoI re-designed for altered DNA cleavage specificity (-7C) | | Descriptor: | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*GP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*CP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3', CALCIUM ION, ... | | Authors: | Taylor, G.K, Stoddard, B.L. | | Deposit date: | 2009-11-13 | | Release date: | 2010-05-19 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
Nucleic Acids Res., 38, 2010
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3LDY
 | | An extraordinary mechanism of DNA perturbation exhibited by the rare-cutting HNH restriction endonuclease PacI | | Descriptor: | CALCIUM ION, DNA (5'-D(*GP*AP*GP*GP*CP*TP*TP*A)-3'), DNA (5'-D(P*AP*TP*TP*AP*AP*GP*CP*CP*TP*C)-3'), ... | | Authors: | Shen, B.W, Heiter, D, Chan, S.-H, Xu, S.-Y, Wilson, G, Stoddard, B.L. | | Deposit date: | 2010-01-13 | | Release date: | 2010-04-21 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (1.97 Å) | | Cite: | Unusual target site disruption by the rare-cutting HNH restriction endonuclease PacI.
Structure, 18, 2010
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3MX1
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3MX4
 | | DNA binding and cleavage by the GIY-YIG endonuclease R.Eco29KI inactive variant E142Q | | Descriptor: | DNA (5'-D(P*CP*GP*GP*GP*AP*GP*GP*CP*CP*CP*GP*CP*GP*GP*GP*CP*CP*GP*CP*CP*GP*C)-3'), DNA (5'-D(P*GP*CP*GP*GP*CP*GP*GP*CP*CP*CP*GP*CP*GP*GP*GP*CP*CP*TP*CP*CP*CP*G)-3'), Eco29kIR | | Authors: | Mak, A.N.S, Lambert, A.R, Stoddard, B.L. | | Deposit date: | 2010-05-06 | | Release date: | 2010-09-08 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Folding, DNA Recognition, and Function of GIY-YIG Endonucleases: Crystal Structures of R.Eco29kI.
Structure, 18, 2010
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3NIC
 | | DNA binding and cleavage by the GIY-YIG endonuclease R.Eco29kI inactive variant Y49F | | Descriptor: | DNA (5'-D(P*CP*GP*GP*GP*AP*GP*GP*CP*CP*CP*GP*CP*GP*GP*GP*CP*CP*GP*CP*CP*GP*C)-3'), DNA (5'-D(P*GP*CP*GP*GP*CP*GP*GP*CP*CP*CP*GP*CP*GP*GP*GP*CP*CP*TP*CP*CP*CP*G)-3'), Eco29kIR, ... | | Authors: | Mak, A.N.S, Lambert, A.R, Stoddard, B.L. | | Deposit date: | 2010-06-15 | | Release date: | 2010-09-08 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Folding, DNA Recognition, and Function of GIY-YIG Endonucleases: Crystal Structures of R.Eco29kI.
Structure, 18, 2010
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3M7K
 | | Crystal structure of PacI-DNA Enzyme product complex | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*GP*AP*GP*GP*CP*TP*TP*AP*AP*T)-3'), DNA (5'-D(P*TP*AP*AP*GP*CP*CP*TP*C)-3'), ... | | Authors: | Shen, B.W, Stoddard, B.L. | | Deposit date: | 2010-03-16 | | Release date: | 2010-04-21 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Unusual target site disruption by the rare-cutting HNH restriction endonuclease PacI.
Structure, 18, 2010
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3MIP
 | | I-MsoI re-designed for altered DNA cleavage specificity (-8GCG) | | Descriptor: | CALCIUM ION, DNA (5'-D(*CP*GP*GP*AP*GP*CP*GP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*CP*GP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*CP*GP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*CP*GP*CP*TP*CP*CP*G)-3'), ... | | Authors: | Taylor, G.K, Stoddard, B.L. | | Deposit date: | 2010-04-11 | | Release date: | 2010-05-19 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
Nucleic Acids Res., 38, 2010
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3MIS
 | | I-MsoI re-designed for altered DNA cleavage specificity (-8G) | | Descriptor: | CALCIUM ION, DNA (5'-D(*CP*GP*GP*AP*GP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*CP*TP*CP*CP*G)-3'), ... | | Authors: | Taylor, G.K, Stoddard, B.L. | | Deposit date: | 2010-04-12 | | Release date: | 2010-05-19 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
Nucleic Acids Res., 38, 2010
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3UD6
 | | Structural analyses of covalent enzyme-substrate analogue complexes reveal strengths and limitations of de novo enzyme design | | Descriptor: | 1-(6-METHOXYNAPHTHALEN-2-YL)BUTANE-1,3-DIONE, RETRO-ALDOLASE, SULFATE ION | | Authors: | Baker, D, Stoddard, B.L, Althoff, E.A, Wang, L, Jiang, L, Moody, J, Bolduc, J, Lassila, J, Hilvert, D. | | Deposit date: | 2011-10-27 | | Release date: | 2011-11-23 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.091 Å) | | Cite: | Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
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1U0D
 | | Y33H Mutant of Homing endonuclease I-CreI | | Descriptor: | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*CP*GP*C)-3', 5'-D(*GP*CP*GP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3', DNA endonuclease I-CreI | | Authors: | Sussman, D, Chadsey, M, Fauce, S, Engel, A, Bruett, A, Monnat, R, Stoddard, B.L, Seligman, L.M. | | Deposit date: | 2004-07-13 | | Release date: | 2004-11-02 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Isolation and characterization of new homing endonuclease specificities at individual target site positions.
J.Mol.Biol., 342, 2004
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1R9X
 | | Bacterial cytosine deaminase D314G mutant. | | Descriptor: | Cytosine deaminase, FE (III) ION, GLYCEROL, ... | | Authors: | Mahan, S.D, Ireton, G.C, Stoddard, B.L, Black, M.E. | | Deposit date: | 2003-10-31 | | Release date: | 2004-10-05 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.58 Å) | | Cite: | Random mutagenesis and selection of Escherichia coli cytosine deaminase for cancer gene therapy.
Protein Eng.Des.Sel., 17, 2004
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1RC8
 | | T4 Polynucleotide Kinase bound to 5'-GTCAC-3' ssDNA | | Descriptor: | 5'-D(*GP*TP*CP*AP*C)-3', ADENOSINE-5'-DIPHOSPHATE, CALCIUM ION, ... | | Authors: | Eastberg, J.H, Pelletier, J, Stoddard, B.L. | | Deposit date: | 2003-11-03 | | Release date: | 2004-02-17 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.75 Å) | | Cite: | Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase.
Nucleic Acids Res., 32, 2004
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1U3E
 | | DNA binding and cleavage by the HNH homing endonuclease I-HmuI | | Descriptor: | 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 36-MER, ... | | Authors: | Shen, B.W, Landthaler, M, Shub, D.A, Stoddard, B.L. | | Deposit date: | 2004-07-21 | | Release date: | 2004-08-31 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.92 Å) | | Cite: | DNA Binding and Cleavage by the HNH Homing Endonuclease I-HmuI.
J.Mol.Biol., 342, 2004
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1RA0
 | | Bacterial cytosine deaminase D314G mutant bound to 5-fluoro-4-(S)-hydroxy-3,4-dihydropyrimidine. | | Descriptor: | (4S)-5-FLUORO-4-HYDROXY-3,4-DIHYDROPYRIMIDIN-2(1H)-ONE, Cytosine deaminase, FE (III) ION | | Authors: | Mahan, S.D, Ireton, G.C, Stoddard, B.L, Black, M.E. | | Deposit date: | 2003-10-31 | | Release date: | 2004-10-05 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.12 Å) | | Cite: | Random mutagenesis and selection of Escherichia coli cytosine deaminase for cancer gene therapy.
Protein Eng.Des.Sel., 17, 2004
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1RPZ
 | | T4 POLYNUCLEOTIDE KINASE BOUND TO 5'-TGCAC-3' SSDNA | | Descriptor: | 5'-D(*TP*GP*CP*AP*C)-3', ADENOSINE-5'-DIPHOSPHATE, CALCIUM ION, ... | | Authors: | Eastberg, J.H, Pelletier, J, Stoddard, B.L. | | Deposit date: | 2003-12-03 | | Release date: | 2004-02-17 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase.
Nucleic Acids Res., 32, 2004
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