2R82
| Pyruvate phosphate dikinase (PPDK) triple mutant R219E/E271R/S262D adapts a second conformational state | Descriptor: | Pyruvate, phosphate dikinase, SULFATE ION | Authors: | Lim, K, Read, R.J, Chen, C.C, Herzberg, O. | Deposit date: | 2007-09-10 | Release date: | 2008-01-01 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (3.6 Å) | Cite: | Swiveling domain mechanism in pyruvate phosphate dikinase. Biochemistry, 46, 2007
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4V7N
| Glycocyamine kinase, beta-beta homodimer from marine worm Namalycastis sp., with transition state analog Mg(II)-ADP-NO3-glycocyamine. | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, GUANIDINO ACETATE, Glycocyamine kinase beta chain, ... | Authors: | Lim, K, Pullalarevu, S, Herzberg, O. | Deposit date: | 2009-12-15 | Release date: | 2014-07-09 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural basis for the mechanism and substrate specificity of glycocyamine kinase, a phosphagen kinase family member. Biochemistry, 49, 2010
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1J85
| Structure of YibK from Haemophilus influenzae (HI0766), a truncated sequence homolog of tRNA (guanosine-2'-O-) methyltransferase (SpoU) | Descriptor: | YibK | Authors: | Lim, K, Zhang, H, Toedt, J, Tempcyzk, A, Krajewski, W, Howard, A, Eisenstein, E, Herzberg, O, Structure 2 Function Project (S2F) | Deposit date: | 2001-05-20 | Release date: | 2003-02-25 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structure of the YibK methyltransferase from Haemophilus influenzae
(HI0766): A cofactor bound at a site formed by a knot Proteins, 51, 2003
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1J8D
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2KZD
| Structure of a (3+1) G-quadruplex formed by hTERT promoter sequence | Descriptor: | DNA (5'-D(*AP*GP*GP*GP*IP*AP*GP*GP*GP*GP*CP*TP*GP*GP*GP*AP*GP*GP*GP*C)-3') | Authors: | Lim, K.W, Lacroix, L, Yue, D.J.E, Lim, J.K.C, Lim, J.M.W, Phan, A.T. | Deposit date: | 2010-06-16 | Release date: | 2010-10-06 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Coexistence of two distinct G-quadruplex conformations in the hTERT promoter J.Am.Chem.Soc., 132, 2010
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2KZE
| Structure of an all-parallel-stranded G-quadruplex formed by hTERT promoter sequence | Descriptor: | DNA (5'-D(*AP*IP*GP*GP*GP*AP*GP*GP*GP*IP*CP*TP*GP*GP*GP*AP*GP*GP*GP*C)-3') | Authors: | Lim, K.W, Lacroix, L, Yue, D.J.E, Lim, J.K.C, Lim, J.M.W, Phan, A.T. | Deposit date: | 2010-06-16 | Release date: | 2010-10-06 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Coexistence of two distinct G-quadruplex conformations in the hTERT promoter J.Am.Chem.Soc., 132, 2010
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5VWK
| Crystal structure of human Scribble PDZ1:Beta-PIX complex | Descriptor: | Beta-PIX, Protein scribble homolog, SULFATE ION | Authors: | Lim, K.Y.B, Kvansakul, M. | Deposit date: | 2017-05-22 | Release date: | 2017-11-08 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | Structural basis for the differential interaction of Scribble PDZ domains with the guanine nucleotide exchange factor beta-PIX. J. Biol. Chem., 292, 2017
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3L2E
| Glycocyamine kinase, alpha-beta heterodimer from marine worm Namalycastis sp. | Descriptor: | Glycocyamine kinase alpha chain, Glycocyamine kinase beta chain | Authors: | Lim, K, Pullalarevu, S, Herzberg, O. | Deposit date: | 2009-12-15 | Release date: | 2010-03-02 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structural basis for the mechanism and substrate specificity of glycocyamine kinase, a phosphagen kinase family member. Biochemistry, 49, 2010
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3L2D
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5VWC
| Crystal structure of human Scribble PDZ1 domain | Descriptor: | 1,2-ETHANEDIOL, Protein scribble homolog | Authors: | Lim, K.Y.B, Kvansakul, M. | Deposit date: | 2017-05-21 | Release date: | 2017-11-08 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (1.911 Å) | Cite: | Structural basis for the differential interaction of Scribble PDZ domains with the guanine nucleotide exchange factor beta-PIX. J. Biol. Chem., 292, 2017
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5VWI
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3CA8
| Crystal structure of Escherichia coli YdcF, an S-adenosyl-L-methionine utilizing enzyme | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, Protein ydcF, SULFATE ION | Authors: | Lim, K, Chao, K, Lehmann, C, Herzberg, O, Structure 2 Function Project (S2F) | Deposit date: | 2008-02-19 | Release date: | 2008-05-06 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | The Escherichia coli YdcF binds S-adenosyl-L-methionine and adopts an alpha/beta-fold characteristic of nucleotide-utilizing enzymes. Proteins, 72, 2008
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1X6J
| Crystal structure of ygfY from Escherichia coli | Descriptor: | Hypothetical protein ygfY | Authors: | Lim, K, Doseeva, V, Sarikaya Demirkan, E, Pullalarevu, S, Krajewski, W, Galkin, A, Howard, A, Herzberg, O, Structure 2 Function Project (S2F) | Deposit date: | 2004-08-11 | Release date: | 2005-02-08 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of the YgfY from Escherichia coli, a protein that may be involved in transcriptional regulation Proteins, 58, 2005
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1X6I
| Crystal structure of ygfY from Escherichia coli | Descriptor: | Hypothetical protein ygfY | Authors: | Lim, K, Doseeva, V, Sarikaya Demirkan, E, Pullalarevu, S, Krajewski, W, Galkin, A, Howard, A, Herzberg, O, Structure 2 Function Project (S2F) | Deposit date: | 2004-08-11 | Release date: | 2005-02-08 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Crystal structure of the YgfY from Escherichia coli, a protein that may be involved in transcriptional regulation Proteins, 58, 2005
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2KF7
| Structure of a two-G-tetrad basket-type intramolecular G-quadruplex formed by human telomeric repeats in K+ solution (with G7-to-BRG substitution) | Descriptor: | HUMAN TELOMERE DNA | Authors: | Lim, K.W, Amrane, S, Bouaziz, S, Xu, W, Mu, Y, Patel, D.J, Luu, K.N, Phan, A.T. | Deposit date: | 2009-02-12 | Release date: | 2009-03-24 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Structure of the human telomere in K+ solution: a stable basket-type G-quadruplex with only two G-tetrad layers J.Am.Chem.Soc., 131, 2009
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2KF8
| Structure of a two-G-tetrad basket-type intramolecular G-quadruplex formed by human telomeric repeats in K+ solution | Descriptor: | HUMAN TELOMERE DNA | Authors: | Lim, K.W, Amrane, S, Bouaziz, S, Xu, W, Mu, Y, Patel, D.J, Luu, K.N, Phan, A.T. | Deposit date: | 2009-02-12 | Release date: | 2009-03-24 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Structure of the human telomere in K+ solution: a stable basket-type G-quadruplex with only two G-tetrad layers J.Am.Chem.Soc., 131, 2009
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4OLC
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2KM3
| Structure of an intramolecular G-quadruplex containing a G.C.G.C tetrad formed by human telomeric variant CTAGGG repeats | Descriptor: | DNA (5'-D(*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*GP*CP*TP*AP*GP*GP*G)-3') | Authors: | Lim, K.W, Alberti, P, Guedin, A, Lacroix, L, Riou, J.F, Royle, N.J, Mergny, J.L, Phan, A.T. | Deposit date: | 2009-07-17 | Release date: | 2009-11-03 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Sequence variant (CTAGGG)n in the human telomere favors a G-quadruplex structure containing a G.C.G.C tetrad Nucleic Acids Res., 37, 2009
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4GAH
| Human acyl-CoA thioesterases 4 in complex with undecan-2-one-CoA inhibitor | Descriptor: | Thioesterase superfamily member 4, [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3R)-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-4-[[3-oxidanylidene-3-[2-[(2R)-2-oxidanylundecyl]sulfanylethylamino]propyl]amino]butyl] hydrogen phosphate | Authors: | Lim, K, Pathak, M.C, Herzberg, O. | Deposit date: | 2012-07-25 | Release date: | 2012-08-29 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Correlation of structure and function in the human hotdog-fold enzyme hTHEM4. Biochemistry, 51, 2012
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4JZ9
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4JZ8
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4JZ7
| Carbamate kinase from Giardia lamblia bound to AMP-PNP | Descriptor: | Carbamate kinase, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER | Authors: | Lim, K, Herzberg, O. | Deposit date: | 2013-04-02 | Release date: | 2013-06-05 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Crystal Structures of Carbamate Kinase from Giardia lamblia Bound with Citric Acid and AMP-PNP. Plos One, 8, 2013
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2HWG
| Structure of phosphorylated Enzyme I of the phosphoenolpyruvate:sugar phosphotransferase system | Descriptor: | MAGNESIUM ION, OXALATE ION, Phosphoenolpyruvate-protein phosphotransferase | Authors: | Lim, K, Teplyakov, A, Herzberg, O. | Deposit date: | 2006-08-01 | Release date: | 2006-11-14 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Structure of phosphorylated enzyme I, the phosphoenolpyruvate:sugar phosphotransferase system sugar translocation signal protein. Proc.Natl.Acad.Sci.Usa, 103, 2006
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2MBJ
| Structure of an antiparallel (2+2) G-quadruplex formed by human telomeric repeats in Na+ solution (with G22-to-BrG substitution) | Descriptor: | DNA_(27-MER) | Authors: | Lim, K.W, Ng, V.C.M, Martin-Pintado, N, Heddi, B, Phan, A.T. | Deposit date: | 2013-08-02 | Release date: | 2013-09-18 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Structure of the human telomere in Na+ solution: an antiparallel (2+2) G-quadruplex scaffold reveals additional diversity. Nucleic Acids Res., 41, 2013
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1GNE
| THE THREE-DIMENSIONAL STRUCTURE OF GLUTATHIONE S-TRANSFERASE OF SCHISTOSOMA JAPONICUM FUSED WITH A CONSERVED NEUTRALIZING EPITOPE ON GP41 OF HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 | Descriptor: | GLUTATHIONE, GLUTATHIONE S-TRANSFERASE | Authors: | Lim, K, Ho, J.X, Keeling, K, Gilliland, G.L, Ji, X, Ruker, F, Carter, D.C. | Deposit date: | 1994-06-16 | Release date: | 1994-11-30 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Three-dimensional structure of Schistosoma japonicum glutathione S-transferase fused with a six-amino acid conserved neutralizing epitope of gp41 from HIV. Protein Sci., 3, 1994
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