5C7Y
 
 | | ZHD-Intermediate complex after ZHD crystal soaking in ZEN for 9min | | Descriptor: | (1E,10S)-1-(3,5-dihydroxyphenyl)-10-hydroxyundec-1-en-6-one, FORMIC ACID, GLYCEROL, ... | | Authors: | Hu, X.-J, Qi, Q, Yang, W.-J. | | Deposit date: | 2015-06-25 | | Release date: | 2016-06-29 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | A Case Study of Lactonase ZHD
To Be Published
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4ECS
 | | Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 80 sec | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-26 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.951 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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4ECX
 | | Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 300 sec | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-26 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.744 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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4ECW
 | | Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 250 sec | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-26 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.896 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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4ECQ
 | | Human DNA polymerase eta- DNA ternary complex: AT crystal at pH6.8(K+ MES) with 1 Ca2+ ion | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*TP*A)-3'), ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-26 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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4ED1
 | | Human DNA polymerase eta - DNA ternary complex: AT crystal at pH 7.0 (Na+ MES) with 1 Ca2+ ion | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-26 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.806 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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4ED8
 | | Human DNA polymerase eta - DNA ternary complex: Reaction in the TG crystal at pH 7.0, Normal translocation | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*G)-3'), ... | | Authors: | Nakamura, T, Zhao, Y, Yang, W. | | Deposit date: | 2012-03-27 | | Release date: | 2012-07-11 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.521 Å) | | Cite: | Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
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5C81
 | | ZHD-Intermediate complex after ZHD crystal soaking in ZEN for 12min | | Descriptor: | (1E,10S)-1-(3,5-dihydroxyphenyl)-10-hydroxyundec-1-en-6-one, FORMIC ACID, GLYCEROL, ... | | Authors: | Hu, X.-J, Qi, Q, Yang, W.-J. | | Deposit date: | 2015-06-25 | | Release date: | 2016-06-29 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | A Case Study of Lactonase ZHD
To Be Published
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1YQM
 | | Catalytically inactive human 8-oxoguanine glycosylase crosslinked to 7-deazaguanine containing DNA | | Descriptor: | 5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*C)-3', 5'-D(P*GP*TP*CP*CP*AP*(7GU)P*GP*TP*CP*TP*AP*C)-3', CALCIUM ION, ... | | Authors: | Banerjee, A, Yang, W, Karplus, M, Verdine, G.L. | | Deposit date: | 2005-02-02 | | Release date: | 2005-04-05 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.
Nature, 434, 2005
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1YQK
 | | Human 8-oxoguanine glycosylase crosslinked with guanine containing DNA | | Descriptor: | 5'-D(*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*G)-3', 5'-D(P*CP*AP*GP*GP*TP*CP*TP*AP*C)-3', CALCIUM ION, ... | | Authors: | Banerjee, A, Yang, W, Karplus, M, Verdine, G.L. | | Deposit date: | 2005-02-01 | | Release date: | 2005-04-05 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.
Nature, 434, 2005
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1YQR
 | | Catalytically inactive human 8-oxoguanine glycosylase crosslinked to oxoG containing DNA | | Descriptor: | 5'-D(P*CP*GP*TP*CP*CP*AP*(8OG)P*GP*TP*CP*TP*AP*CP*C)-3', 5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*G)-3', CALCIUM ION, ... | | Authors: | Banerjee, A, Yang, W, Karplus, M, Verdine, G.L. | | Deposit date: | 2005-02-02 | | Release date: | 2005-04-05 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.43 Å) | | Cite: | Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.
Nature, 434, 2005
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1YQL
 | | Catalytically inactive hOGG1 crosslinked with 7-deaza-8-azaguanine containing DNA | | Descriptor: | 5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*C)-3', 5'-D(P*GP*TP*CP*CP*AP*(PPW)P*GP*TP*CP*TP*AP*C)-3', CALCIUM ION, ... | | Authors: | Banerjee, A, Yang, W, Karplus, M, Verdine, G.L. | | Deposit date: | 2005-02-02 | | Release date: | 2005-04-05 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.
Nature, 434, 2005
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1ZBI
 | | Bacillus halodurans RNase H catalytic domain mutant D132N in complex with 12-mer RNA/DNA hybrid | | Descriptor: | 5'-D(*GP*AP*AP*TP*CP*AP*GP*GP*TP*GP*TP*C)-3', 5'-R(*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*C)-3', MAGNESIUM ION, ... | | Authors: | Nowotny, M, Gaidamakov, S.A, Crouch, R.J, Yang, W. | | Deposit date: | 2005-04-08 | | Release date: | 2005-07-12 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Crystal Structures of RNase H Bound to an RNA/DNA Hybrid: Substrate Specificity and Metal-Dependent Catalysis.
Cell(Cambridge,Mass.), 121, 2005
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1ZBF
 | | Crystal structure of B. halodurans RNase H catalytic domain mutant D132N | | Descriptor: | SULFATE ION, ribonuclease H-related protein | | Authors: | Nowotny, M, Gaidamakov, S.A, Crouch, R.J, Yang, W. | | Deposit date: | 2005-04-08 | | Release date: | 2005-07-12 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Crystal Structures of RNase H Bound to an RNA/DNA Hybrid: Substrate Specificity and Metal-Dependent Catalysis.
Cell(Cambridge,Mass.), 121, 2005
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1ZBL
 | | Bacillus halodurans RNase H catalytic domain mutant D192N in complex with 12-mer RNA/DNA hybrid | | Descriptor: | 5'-D(*GP*AP*AP*TP*CP*AP*GP*GP*TP*GP*TP*C)-3', 5'-R(*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*C)-3', MAGNESIUM ION, ... | | Authors: | Nowotny, M, Gaidamakov, S.A, Crouch, R.J, Yang, W. | | Deposit date: | 2005-04-08 | | Release date: | 2005-07-12 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structures of RNase H Bound to an RNA/DNA Hybrid: Substrate Specificity and Metal-Dependent Catalysis.
Cell(Cambridge,Mass.), 121, 2005
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2A2K
 | | Crystal Structure of an active site mutant, C473S, of Cdc25B Phosphatase Catalytic Domain | | Descriptor: | CHLORIDE ION, M-phase inducer phosphatase 2, SULFATE ION | | Authors: | Sohn, J, Parks, J, Buhrman, G, Brown, P, Kristjansdottir, K, Safi, A, Yang, W, Edelsbrunner, H, Rudolph, J. | | Deposit date: | 2005-06-22 | | Release date: | 2006-01-03 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (1.52 Å) | | Cite: | Experimental Validation of the Docking Orientation of Cdc25 with Its Cdk2-CycA Protein Substrate.
Biochemistry, 44, 2005
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2AXC
 | | Crystal structure of ColE7 translocation domain | | Descriptor: | Colicin E7, GLYCEROL, SULFATE ION | | Authors: | Cheng, Y.S, Shi, Z, Doudeva, L.G, Yang, W.Z, Chak, K.F, Yuan, H.S. | | Deposit date: | 2005-09-04 | | Release date: | 2006-03-14 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | High-resolution crystal structure of a truncated ColE7 translocation domain: implications for colicin transport across membranes
J.Mol.Biol., 356, 2006
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2AOR
 | | Crystal structure of MutH-hemimethylated DNA complex | | Descriptor: | 5'-D(*CP*AP*GP*GP*(6MA)P*TP*CP*CP*AP*AP*GP*CP*TP*TP*GP*GP*AP*TP*CP*CP*TP*G)-3', CALCIUM ION, DNA mismatch repair protein mutH | | Authors: | Lee, J.Y, Chang, J, Joseph, N, Ghirlando, R, Rao, D.N, Yang, W. | | Deposit date: | 2005-08-13 | | Release date: | 2005-10-11 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | MutH complexed with hemi- and unmethylated DNAs: coupling base recognition and DNA cleavage.
Mol.Cell, 20, 2005
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2AGQ
 | | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*CP*TP*AP*CP*AP*GP*GP*AP*CP*TP*(DOC))-3', 5'-D(*TP*CP*AP*TP*GP*AP*GP*TP*CP*CP*TP*GP*TP*AP*GP*CP*C)-3', ... | | Authors: | Ling, H, Yang, W. | | Deposit date: | 2005-07-27 | | Release date: | 2005-09-06 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis.
Embo J., 24, 2005
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2AOQ
 | | Crystal structure of MutH-unmethylated DNA complex | | Descriptor: | 5'-D(*GP*CP*AP*TP*GP*AP*TP*CP*AP*TP*GP*C)-3', CALCIUM ION, DNA mismatch repair protein mutH | | Authors: | Lee, J.Y, Chang, J, Joseph, N, Ghirlando, R, Rao, D.N, Yang, W. | | Deposit date: | 2005-08-13 | | Release date: | 2005-10-11 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | MutH complexed with hemi- and unmethylated DNAs: coupling base recognition and DNA cleavage.
Mol.Cell, 20, 2005
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2AGP
 | | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*(DOC)-3'), ... | | Authors: | Ling, H, Yang, W. | | Deposit date: | 2005-07-27 | | Release date: | 2005-09-06 | | Last modified: | 2023-02-08 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis.
Embo J., 24, 2005
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2AGO
 | | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis | | Descriptor: | CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*G)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ... | | Authors: | Ling, H, Yang, W. | | Deposit date: | 2005-07-27 | | Release date: | 2005-09-06 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis.
Embo J., 24, 2005
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3LWO
 | | Structure of H/ACA RNP bound to a substrate RNA containing 5BrU | | Descriptor: | 5'-R(*GP*AP*GP*CP*GP*(5BU)P*GP*CP*GP*GP*UP*UP*U)-3', 50S ribosomal protein L7Ae, H/ACA RNA, ... | | Authors: | Zhou, J, Liang, B, Lv, C, Yang, W, Li, H. | | Deposit date: | 2010-02-24 | | Release date: | 2010-07-14 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.855 Å) | | Cite: | Glycosidic bond conformation preference plays a pivotal role in catalysis of RNA pseudouridylation: a combined simulation and structural study.
J.Mol.Biol., 401, 2010
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3LWP
 | | Structure of H/ACA RNP bound to a substrate RNA containing 5BrdU | | Descriptor: | 5'-R(*GP*AP*GP*CP*GP*(BRU)P*GP*CP*GP*GP*UP*UP*U)-3, 50S ribosomal protein L7Ae, H/ACA RNA, ... | | Authors: | Zhou, J, Liang, B, Lv, C, Yang, W, Li, H. | | Deposit date: | 2010-02-24 | | Release date: | 2010-07-14 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Glycosidic bond conformation preference plays a pivotal role in catalysis of RNA pseudouridylation: a combined simulation and structural study.
J.Mol.Biol., 401, 2010
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7SUD
 | | CryoEM structure of DNA-PK complex VIII | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA-dependent protein kinase catalytic subunit, MAGNESIUM ION, ... | | Authors: | Chen, X, Liu, L, Gellert, M, Yang, W. | | Deposit date: | 2021-11-16 | | Release date: | 2022-01-12 | | Last modified: | 2022-01-19 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Autophosphorylation transforms DNA-PK from protecting to processing DNA ends.
Mol.Cell, 82, 2022
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