4FLG
| HIV-1 protease mutant I47V complexed with reaction intermediate | Descriptor: | CHLORIDE ION, GLUTAMIC ACID, GLYCEROL, ... | Authors: | Yu, X, Shen, C.H, Weber, I.T. | Deposit date: | 2012-06-14 | Release date: | 2012-10-17 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.31 Å) | Cite: | Capturing the Reaction Pathway in Near-Atomic-Resolution Crystal Structures of HIV-1 Protease. Biochemistry, 51, 2012
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7S78
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3SIT
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3SIS
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3TJZ
| Crystal Structure of Arf1 Bound to the gamma/zeta-COP Core Complex | Descriptor: | ADP-ribosylation factor 1, Coatomer subunit gamma, Coatomer subunit zeta-1, ... | Authors: | Goldberg, J, Yu, X, Breitman, M. | Deposit date: | 2011-08-25 | Release date: | 2012-02-22 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | A structure-based mechanism for arf1-dependent recruitment of coatomer to membranes. Cell(Cambridge,Mass.), 148, 2012
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6DRD
| RNA Pol II(G) | Descriptor: | DNA-directed RNA polymerase II subunit GRINL1A, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11-a, ... | Authors: | Yu, X, Jishage, M, Shi, Y, Ganesan, S, Sali, A, Chait, B.T, Asturias, F, Roeder, R.G. | Deposit date: | 2018-06-11 | Release date: | 2019-06-12 | Last modified: | 2019-12-04 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Architecture of Pol II(G) and molecular mechanism of transcription regulation by Gdown1. Nat. Struct. Mol. Biol., 25, 2018
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2QCJ
| Native Structure of Lyp | Descriptor: | Tyrosine-protein phosphatase non-receptor type 22 | Authors: | Sun, J.P, Yu, X, Zhang, Z.Y. | Deposit date: | 2007-06-19 | Release date: | 2007-11-20 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystal structure of Lyp and its complex with a selective inhibitor To be Published
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8E78
| Cryo-EM structure of human ME3 in the presence of citrate | Descriptor: | NADP-dependent malic enzyme, mitochondrial | Authors: | Yu, X, Grell, T.A.J, Shaffer, P.L, Steele, R, Sharma, S, Thompson, A.A, Tresadern, G, Ortiz-Meoz, R.F, Mason, M, Gomez-Tamayo, J.C, Riley, D, Wagner, M.V, Wadia, J. | Deposit date: | 2022-08-23 | Release date: | 2023-02-08 | Method: | ELECTRON MICROSCOPY (2.77 Å) | Cite: | Integrative structural and functional analysis of human malic enzyme 3: A potential therapeutic target for pancreatic cancer. Heliyon, 8, 2022
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8E76
| Cryo-EM structure of Apo form ME3 | Descriptor: | NADP-dependent malic enzyme, mitochondrial | Authors: | Yu, X, Grell, T.A.J, Shaffer, P.L, Steele, R, Sharma, S, Thompson, A.A, Tresadern, G, Ortiz-Meoz, R.F, Mason, M, Gomez-Tamayo, J.C, Riley, D, Wagner, M.V, Wadia, J. | Deposit date: | 2022-08-23 | Release date: | 2023-02-08 | Method: | ELECTRON MICROSCOPY (2.51 Å) | Cite: | Integrative structural and functional analysis of human malic enzyme 3: A potential therapeutic target for pancreatic cancer. Heliyon, 8, 2022
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8E8O
| Cryo-EM structure of human ME3 in the presence of citrate | Descriptor: | NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, NADP-dependent malic enzyme, mitochondrial | Authors: | Yu, X, Grell, T.A.J, Shaffer, P.L, Steele, R, Sharma, S, Thompson, A.A, Tresadern, G, Ortiz-Meoz, R.F, Mason, M, Gomez-Tamayo, J.C, Riley, D, Wagner, M.V, Wadia, J. | Deposit date: | 2022-08-25 | Release date: | 2023-02-08 | Method: | ELECTRON MICROSCOPY (2.77 Å) | Cite: | Integrative structural and functional analysis of human malic enzyme 3: A potential therapeutic target for pancreatic cancer. Heliyon, 8, 2022
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5BWI
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5TX1
| Cryo-Electron microscopy structure of species-D human adenovirus 26 | Descriptor: | Fiber, Hexon protein, PIIIa, ... | Authors: | Reddy, V, Yu, X, Veesler, D. | Deposit date: | 2016-11-15 | Release date: | 2017-05-31 | Last modified: | 2024-03-13 | Method: | ELECTRON MICROSCOPY (3.7 Å) | Cite: | Cryo-EM structure of human adenovirus D26 reveals the conservation of structural organization among human adenoviruses. Sci Adv, 3, 2017
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8F0G
| Structure of SARS-CoV-2 Omicron BA.1 spike in complex with antibody Fab 1C3 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody 1C3 Fab Heavy Chain, ... | Authors: | Yu, X, Zyla, D, Hastie, K.M, Saphire, E.O. | Deposit date: | 2022-11-02 | Release date: | 2023-05-03 | Method: | ELECTRON MICROSCOPY (3.35 Å) | Cite: | Potent Omicron-neutralizing antibodies isolated from a patient vaccinated 6 months before Omicron emergence. Cell Rep, 42, 2023
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8F0H
| Structure of SARS-CoV-2 spike with antibody Fabs 2A10 and 1H2 (Local refinement of the RBD and Fabs 1H2 and 2A10) | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody Fab 1H2 heavy chain, Antibody Fab 1H2 light chain, ... | Authors: | Yu, X, Zyla, D, Hastie, K.M, Saphire, E.O. | Deposit date: | 2022-11-02 | Release date: | 2023-05-03 | Method: | ELECTRON MICROSCOPY (3.18 Å) | Cite: | Potent Omicron-neutralizing antibodies isolated from a patient vaccinated 6 months before Omicron emergence. Cell Rep, 42, 2023
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7WGR
| Cryo-electron microscopic structure of the 2-oxoglutarate dehydrogenase (E1) component of the human alpha-ketoglutarate (2-oxoglutarate) dehydrogenase complex | Descriptor: | 2-oxoglutarate dehydrogenase, mitochondrial, CALCIUM ION, ... | Authors: | Yu, X, Yang, W, Zhong, Y.H, Ma, X.M, Gao, Y.Z. | Deposit date: | 2021-12-28 | Release date: | 2022-06-01 | Method: | ELECTRON MICROSCOPY (2.92 Å) | Cite: | Structural basis for the activity and regulation of human alpha-ketoglutarate dehydrogenase revealed by Cryo-EM Biochem.Biophys.Res.Commun., 602, 2022
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1N03
| Model for Active RecA Filament | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, RecA protein | Authors: | VanLoock, M.S, Yu, X, Yang, S, Lai, A.L, Low, C, Campbell, M.J, Egelman, E.H. | Deposit date: | 2002-10-10 | Release date: | 2003-02-25 | Last modified: | 2024-02-14 | Method: | ELECTRON MICROSCOPY (20 Å) | Cite: | ATP-Mediated Conformational Changes in the RecA Filament Structure, 11, 2003
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2G7M
| Crystal structure of B. fragilis N-succinylornithine transcarbamylase P90E mutant complexed with carbamoyl phosphate and N-acetylnorvaline | Descriptor: | N-ACETYL-L-NORVALINE, PHOSPHORIC ACID MONO(FORMAMIDE)ESTER, SULFATE ION, ... | Authors: | Shi, D, Yu, X, Roth, L, Morizono, H, Allewell, N.M, Tuchman, M. | Deposit date: | 2006-02-28 | Release date: | 2007-03-06 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | A single mutation in the active site swaps the substrate specificity of N-acetyl-L-ornithine transcarbamylase and N-succinyl-L-ornithine transcarbamylase. Protein Sci., 16, 2007
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3TXX
| Crystal structure of putrescine transcarbamylase from Enterococcus faecalis | Descriptor: | Putrescine carbamoyltransferase, SULFATE ION | Authors: | Shi, D, Yu, X, Zhao, G, Allewell, N.M, Tuchman, M. | Deposit date: | 2011-09-23 | Release date: | 2012-02-01 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Crystal structure of putrescine transcarbamylase from Enterococcus faecalis: Structural insights into the oligomeric assembly and the active site To be Published
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7NSG
| Structure of human excitatory amino acid transporter 3 (EAAT3) in complex with HIP-B | Descriptor: | (+)-3-Hydroxy-4,5,6,6a-tetrahydro-3aH-pyrrolo[3,4-d]isoxazole-6-carboxylic acid, (-)-3-Hydroxy-4,5,6,6a-tetrahydro-3aH-pyrrolo[3,4-d]isoxazole-6-carboxylic acid, 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE, ... | Authors: | Baronina, A, Pike, A.C.W, Yu, X, Dong, Y.Y, Shintre, C.A, Tessitore, A, Chu, A, Rotty, B, Venkaya, S, Mukhopadhyay, S.M.M, Borkowska, O, Chalk, R, Shrestha, L, Burgess-Brown, N.A, Edwards, A.M, Arrowsmith, C.H, Bountra, C, Han, S, Carpenter, E.P, Structural Genomics Consortium (SGC) | Deposit date: | 2021-03-05 | Release date: | 2022-03-16 | Method: | ELECTRON MICROSCOPY (3.34 Å) | Cite: | Structure of human excitatory amino acid transporter 3 (EAAT3) in complex with HIP-B TO BE PUBLISHED
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3L04
| Crystal structure of N-acetyl-L-ornithine transcarbamylase E92P mutant complexed with carbamyl phosphate and N-succinyl-L-norvaline | Descriptor: | N-(3-CARBOXYPROPANOYL)-L-NORVALINE, N-acetylornithine carbamoyltransferase, PHOSPHORIC ACID MONO(FORMAMIDE)ESTER, ... | Authors: | Shi, D, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2009-12-09 | Release date: | 2010-03-31 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | A single mutation in the active site swaps the substrate specificity of N-acetyl-L-ornithine transcarbamylase and N-succinyl-L-ornithine transcarbamylase. Protein Sci., 16, 2007
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3L06
| Crystal structure of N-acetyl-L-ornithine transcarbamylase E92V mutant complexed with carbamyl phosphate and N-succinyl-L-norvaline | Descriptor: | N-(3-CARBOXYPROPANOYL)-L-NORVALINE, N-acetylornithine carbamoyltransferase, PHOSPHORIC ACID MONO(FORMAMIDE)ESTER, ... | Authors: | Shi, D, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2009-12-09 | Release date: | 2010-03-31 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.81 Å) | Cite: | A single mutation in the active site swaps the substrate specificity of N-acetyl-L-ornithine transcarbamylase and N-succinyl-L-ornithine transcarbamylase. Protein Sci., 16, 2007
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3L05
| Crystal structure of N-acetyl-L-ornithine transcarbamylase E92S mutant complexed with carbamyl phosphate and N-succinyl-L-norvaline | Descriptor: | N-(3-CARBOXYPROPANOYL)-L-NORVALINE, N-acetylornithine carbamoyltransferase, PHOSPHORIC ACID MONO(FORMAMIDE)ESTER, ... | Authors: | Shi, D, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2009-12-09 | Release date: | 2010-03-31 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | A single mutation in the active site swaps the substrate specificity of N-acetyl-L-ornithine transcarbamylase and N-succinyl-L-ornithine transcarbamylase. Protein Sci., 16, 2007
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2R8V
| Native structure of N-acetylglutamate synthase from Neisseria gonorrhoeae | Descriptor: | ACETYL COENZYME *A, Putative acetylglutamate synthase | Authors: | Shi, D, Sagar, V, Jin, Z, Yu, X, Caldovic, L, Morizono, H, Allewell, N.M, Tuchman, M. | Deposit date: | 2007-09-11 | Release date: | 2008-01-15 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | The crystal structure of N-acetyl-L-glutamate synthase from Neisseria gonorrhoeae provides insights into mechanisms of catalysis and regulation. J.Biol.Chem., 283, 2008
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7ZBT
| Subtomogram averaging of Rubisco from native Halothiobacillus carboxysomes | Descriptor: | Ribulose bisphosphate carboxylase large chain, Ribulose bisphosphate carboxylase small subunit | Authors: | Ni, T, Zhu, Y, Yu, X, Sun, Y, Liu, L, Zhang, P. | Deposit date: | 2022-03-24 | Release date: | 2022-07-20 | Last modified: | 2023-01-18 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structure and assembly of cargo Rubisco in two native alpha-carboxysomes. Nat Commun, 13, 2022
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6DU3
| Structure of Scp1 D96N bound to REST-pS861/4 peptide | Descriptor: | Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, MAGNESIUM ION, REST-pS861 | Authors: | Burkholder, N.T, Mayfield, J.E, Yu, X, Irani, S, Arce, D.K, Jiang, F, Matthews, W, Xue, Y, Zhang, Y.J. | Deposit date: | 2018-06-19 | Release date: | 2018-09-26 | Last modified: | 2020-01-01 | Method: | X-RAY DIFFRACTION (2.58 Å) | Cite: | Phosphatase activity of small C-terminal domain phosphatase 1 (SCP1) controls the stability of the key neuronal regulator RE1-silencing transcription factor (REST). J. Biol. Chem., 293, 2018
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