4R6F
 
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3I1C
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4QPZ
 | | Crystal structure of the formolase FLS_v2 in space group P 21 | | Descriptor: | Formolase, MAGNESIUM ION, THIAMINE DIPHOSPHATE | | Authors: | Shen, B.W, Siegel, J.B, Stoddard, B.L, Baker, D. | | Deposit date: | 2014-06-25 | | Release date: | 2015-03-11 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Computational protein design enables a novel one-carbon assimilation pathway.
Proc.Natl.Acad.Sci.USA, 112, 2015
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3HYJ
 | | Crystal structure of the N-terminal LAGLIDADG domain of DUF199/WhiA | | Descriptor: | CHLORIDE ION, GLYCEROL, Protein DUF199/WhiA, ... | | Authors: | Kaiser, B.K, Clifton, M.C, Shen, B.W, Stoddard, B.L. | | Deposit date: | 2009-06-22 | | Release date: | 2009-09-01 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | The structure of a bacterial DUF199/WhiA protein: domestication of an invasive endonuclease.
Structure, 17, 2009
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7SQ4
 | | Designed trefoil knot protein, variant 2 | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, Designed trefoil knot protein, variant 2, ... | | Authors: | Takushi, B, Doyle, L, Stoddard, B.L, Bradley, P. | | Deposit date: | 2021-11-04 | | Release date: | 2022-06-29 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.493 Å) | | Cite: | De novo design of knotted tandem repeat proteins.
Nat Commun, 14, 2023
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7SQ3
 | | Designed trefoil knot protein, variant 1 | | Descriptor: | CHLORIDE ION, Designed trefoil knot protein, variant 1, ... | | Authors: | Takushi, B, Doyle, L, Stoddard, B.L, Bradley, P. | | Deposit date: | 2021-11-04 | | Release date: | 2022-06-29 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.453 Å) | | Cite: | De novo design of knotted tandem repeat proteins.
Nat Commun, 14, 2023
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7SQ5
 | | Designed trefoil knot protein, variant 3 | | Descriptor: | Designed trefoil knot protein, variant 3, SODIUM ION | | Authors: | Takushi, B, Doyle, L, Stoddard, B.L, Bradley, P. | | Deposit date: | 2021-11-04 | | Release date: | 2022-11-09 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.205 Å) | | Cite: | De novo design of knotted tandem repeat proteins.
Nat Commun, 14, 2023
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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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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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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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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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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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7R9G
 | | Catalytically inactive yeast Pseudouridine Synthase, PUS1, bound to RNA | | Descriptor: | CHLORIDE ION, RNA (5'-R(*AP*AP*AP*UP*CP*GP*GP*GP*AP*UP*UP*CP*CP*GP*GP*AP*UP*A)-3'), SULFATE ION, ... | | Authors: | Doyle, L.A, Stoddard, B.L. | | Deposit date: | 2021-06-29 | | Release date: | 2021-12-15 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | The structural basis of mRNA recognition and binding by yeast pseudouridine synthase PUS1.
Plos One, 18, 2023
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7R9F
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7RCF
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7RCG
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7RCD
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7RCE
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7RCC
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1QYS
 | | Crystal structure of Top7: A computationally designed protein with a novel fold | | Descriptor: | TOP7 | | Authors: | Kuhlman, B, Dantas, G, Ireton, G.C, Varani, G, Stoddard, B.L, Baker, D. | | Deposit date: | 2003-09-11 | | Release date: | 2003-11-25 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Design of a Novel Globular Protein Fold with Atomic-Level Accuracy
Science, 302, 2003
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1R9Y
 | | Bacterial cytosine deaminase D314A 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 (1.57 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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1RB7
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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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