1DVL
 
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6U81
 | | Crystal Structure of the Double Homeodomain of DUX4 in Complex with a DNA aptamer | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*GP*CP*GP*TP*AP*AP*TP*CP*TP*AP*AP*TP*CP*AP*AP*CP*A)-3'), DNA (5'-D(*TP*GP*TP*TP*GP*AP*TP*TP*AP*GP*CP*CP*CP*AP*TP*TP*AP*CP*GP*C)-3'), ... | | Authors: | Shi, K, Aihara, H. | | Deposit date: | 2019-09-04 | | Release date: | 2020-02-19 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (2.34 Å) | | Cite: | DNA aptamers against the DUX4 protein reveal novel therapeutic implications for FSHD.
Faseb J., 34, 2020
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2AXZ
 | | Crystal structure of PrgX/cCF10 complex | | Descriptor: | LVTLVFV peptide, PrgX, TPPKEVT(MSE) peptide | | Authors: | Shi, K, Brown, C.K, Gu, Z.Y, Kozlowicz, B.K, Dunny, G.M, Ohlendorf, D.H, Earhart, C.A. | | Deposit date: | 2005-09-06 | | Release date: | 2005-12-06 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.
Proc.Natl.Acad.Sci.Usa, 102, 2005
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2AWI
 | | Structure of PrgX Y153C mutant | | Descriptor: | PrgX | | Authors: | Shi, K, Brown, C.K, Gu, Z.Y, Kozlowicz, B.k, Dunny, G.M, Ohlendorf, D.H, Earhart, C.A. | | Deposit date: | 2005-09-01 | | Release date: | 2005-12-06 | | Last modified: | 2021-10-20 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.
Proc.Natl.Acad.Sci.Usa, 102, 2005
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2AXU
 | | Structure of PrgX | | Descriptor: | PrgX | | Authors: | Shi, K, Brown, C.K, Gu, Z.Y, Kozlowicz, B.K, Dunny, G.M, Ohlendorf, D.H, Earhart, C.A. | | Deposit date: | 2005-09-06 | | Release date: | 2005-12-06 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.
Proc.Natl.Acad.Sci.Usa, 102, 2005
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2AXV
 | | Structure of PrgX Y153C mutant | | Descriptor: | PrgX | | Authors: | Shi, K, Brown, C.K, Gu, Z.Y, Kozlowicz, B.K, Dunny, G.M, Ohlendorf, D.H, Earhart, C.A. | | Deposit date: | 2005-09-06 | | Release date: | 2005-12-06 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.
Proc.Natl.Acad.Sci.Usa, 102, 2005
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2AW6
 | | Structure of a bacterial peptide pheromone/receptor complex and its mechanism of gene regulation | | Descriptor: | PrgX, peptide | | Authors: | Shi, K, Brown, C.K, Gu, Z.Y, Kozlowicz, B.K, Dunny, G.M, Ohlendorf, D.H, Earhart, C.A. | | Deposit date: | 2005-08-31 | | Release date: | 2005-12-06 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.
Proc.Natl.Acad.Sci.Usa, 102, 2005
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7SPO
 | | Crystal structure of the SARS-CoV-2 receptor binding domain in complex with VNAR 3B4 | | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, Spike protein S1, ... | | Authors: | Shi, K, Aihara, H. | | Deposit date: | 2021-11-02 | | Release date: | 2022-01-05 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Mechanisms of SARS-CoV-2 neutralization by shark variable new antigen receptors elucidated through X-ray crystallography.
Nat Commun, 12, 2021
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6XC0
 | | Crystal structure of bacteriophage T4 spackle and lysozyme in monoclinic form | | Descriptor: | 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, CHLORIDE ION, ... | | Authors: | Shi, K, Oakland, J.T, Kurniawan, F, Moeller, N.H, Aihara, H. | | Deposit date: | 2020-06-07 | | Release date: | 2020-12-02 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.78 Å) | | Cite: | Structural basis of superinfection exclusion by bacteriophage T4 Spackle.
Commun Biol, 3, 2020
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6U82
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2GRM
 | | Crystal structure of PrgX/iCF10 complex | | Descriptor: | PrgX, peptide | | Authors: | Shi, K, Kozlowicz, B.K, Gu, Z.Y, Ohlendorf, D.H, Earhart, C.A, Dunny, G.M. | | Deposit date: | 2006-04-24 | | Release date: | 2007-04-03 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Molecular basis for control of conjugation by bacterial pheromone and inhibitor peptides.
Mol.Microbiol., 62, 2006
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2GRL
 | | Crystal structure of dCT/iCF10 complex | | Descriptor: | PrgX, peptide | | Authors: | Shi, K, Kozlowicz, B.K, Gu, Z.Y, Ohlendorf, D.H, Earhart, C.A, Dunny, G.M. | | Deposit date: | 2006-04-24 | | Release date: | 2007-04-03 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Molecular basis for control of conjugation by bacterial pheromone and inhibitor peptides.
Mol.Microbiol., 62, 2006
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5CQD
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4F1H
 | | Crystal structure of TDP2 from Danio rerio complexed with a single strand DNA | | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | | Authors: | Shi, K, Kurahashi, K, Aihara, H. | | Deposit date: | 2012-05-06 | | Release date: | 2012-10-31 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (1.662 Å) | | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2.
Nat.Struct.Mol.Biol., 19, 2012
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4FPV
 | | Crystal structure of D. rerio TDP2 complexed with single strand DNA product | | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | | Authors: | Shi, K, Kurahashi, K, Aihara, H. | | Deposit date: | 2012-06-22 | | Release date: | 2012-10-31 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.73 Å) | | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2.
Nat.Struct.Mol.Biol., 19, 2012
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4FW2
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6XC1
 | | Crystal structure of bacteriophage T4 spackle and lysozyme in orthorhombic form | | Descriptor: | 1,2-ETHANEDIOL, ISOPROPYL ALCOHOL, Lysozyme, ... | | Authors: | Shi, K, Oakland, J.T, Kurniawan, F, Moeller, N.H, Aihara, H. | | Deposit date: | 2020-06-07 | | Release date: | 2020-12-02 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Structural basis of superinfection exclusion by bacteriophage T4 Spackle.
Commun Biol, 3, 2020
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6X6O
 | | Crystal structure of T4 protein Spackle as determined by native SAD phasing | | Descriptor: | CHLORIDE ION, Protein spackle | | Authors: | Shi, K, Kurniawan, F, Banerjee, S, Moeller, N.H, Aihara, H. | | Deposit date: | 2020-05-28 | | Release date: | 2020-09-16 | | Method: | X-RAY DIFFRACTION (1.52 Å) | | Cite: | Crystal structure of bacteriophage T4 Spackle as determined by native SAD phasing.
Acta Crystallogr D Struct Biol, 76, 2020
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7SPP
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5CQK
 | | Crystal Structure of the Cancer Genomic DNA Mutator APOBEC3B | | Descriptor: | DNA dC->dU-editing enzyme APOBEC-3B, GLYCEROL, SODIUM ION, ... | | Authors: | Shi, K, Kurahashi, K, Aihara, H. | | Deposit date: | 2015-07-21 | | Release date: | 2015-10-07 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (1.88 Å) | | Cite: | Crystal Structure of the DNA Deaminase APOBEC3B Catalytic Domain.
J.Biol.Chem., 290, 2015
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5CQH
 | | Crystal Structure of the Cancer Genomic DNA Mutator APOBEC3B | | Descriptor: | 1,2-ETHANEDIOL, 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE, CHLORIDE ION, ... | | Authors: | Shi, K, Kurahashi, K, Aihara, H. | | Deposit date: | 2015-07-21 | | Release date: | 2015-10-07 | | Last modified: | 2024-03-06 | | Method: | X-RAY DIFFRACTION (1.73 Å) | | Cite: | Crystal Structure of the DNA Deaminase APOBEC3B Catalytic Domain.
J.Biol.Chem., 290, 2015
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5CQI
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4F1I
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7K30
 | | Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with dU at the active site | | Descriptor: | 1,2-ETHANEDIOL, DNA (27-MER), Endonuclease Q, ... | | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | | Deposit date: | 2020-09-10 | | Release date: | 2021-03-17 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.34 Å) | | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q.
Proc.Natl.Acad.Sci.USA, 118, 2021
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7K31
 | | Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with dI at the active site | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, DNA (27-MER), ... | | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | | Deposit date: | 2020-09-10 | | Release date: | 2021-03-17 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.88 Å) | | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q.
Proc.Natl.Acad.Sci.USA, 118, 2021
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