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8HLA
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Heteromeric ring comprised of peroxiredoxin from Thermococcus kodakaraensis (TkPrx) F42C/C46S/C205S/C211S mutant modified with 2-(bromoacetyl)naphthalene (Naph@TkPrx*F42C) and TkPrx C46S/F76C/C205S/C211S mutant modified with 2-(bromoacetyl)naphthalene (Naph@TkPrx*F76C) (Naph@(MIX|3:3))
分子名称: 1-naphthalen-2-ylethanone, Peroxiredoxin
著者Himiyama, T, Hamaguchi, T, Yonekura, K, Nakamura, T.
登録日2022-11-29
公開日2023-03-22
最終更新日2023-12-13
実験手法ELECTRON MICROSCOPY (2.81 Å)
主引用文献Unnaturally Distorted Hexagonal Protein Ring Alternatingly Reorganized from Two Distinct Chemically Modified Proteins.
Bioconjug.Chem., 2023
2RQQ
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Structure of C-terminal region of Cdt1
分子名称: DNA replication factor Cdt1
著者Jee, J.G, Mizuno, T, Kamada, K, Tochio, H, Hiroaki, H, Hanaoka, F, Shirakawa, M.
登録日2009-10-14
公開日2010-03-23
最終更新日2024-05-29
実験手法SOLUTION NMR
主引用文献Structure and mutagenesis studies of the C-terminal region of licensing factor Cdt1 enable the identification of key residues for binding to replicative helicase Mcm proteins
J.Biol.Chem., 285, 2010
8HIX
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Cryo-EM structure of GPR21_m5_Gs
分子名称: Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, Guanine nucleotide-binding protein G(s) subunit alpha isoforms short, ...
著者Chen, B, Lin, X, Xu, F.
登録日2022-11-22
公開日2023-03-15
最終更新日2023-03-22
実験手法ELECTRON MICROSCOPY (3.12 Å)
主引用文献Cryo-EM structures of orphan GPR21 signaling complexes.
Nat Commun, 14, 2023
4V8A
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BU of 4v8a by Molmil
The structure of thermorubin in complex with the 70S ribosome from Thermus thermophilus.
分子名称: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ...
著者Bulkley, D, Johnson, F.A, Steitz, T.A.
登録日2011-12-05
公開日2014-07-09
最終更新日2014-12-10
実験手法X-RAY DIFFRACTION (3.2 Å)
主引用文献The antibiotic thermorubin inhibits protein synthesis by binding to inter-subunit bridge b2a of the ribosome.
J.Mol.Biol., 416, 2012
2RSG
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BU of 2rsg by Molmil
Solution structure of the CERT PH domain
分子名称: Collagen type IV alpha-3-binding protein
著者Sugiki, T, Takeuchi, K, Tokunaga, Y, Kumagai, K, Kawano, M, Nishijima, M, Hanada, K, Takahashi, H, Shimada, I.
登録日2012-02-25
公開日2012-08-15
最終更新日2024-05-15
実験手法SOLUTION NMR
主引用文献Structural basis for the Golgi association by the pleckstrin homology domain of the ceramide trafficking protein (CERT)
J.Biol.Chem., 287, 2012
2RU8
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DnaT C-terminal domain
分子名称: Primosomal protein 1
著者Abe, Y, Tani, J, Fujiyama, S, Urabe, M, Sato, K, Aramaki, T, Katayama, T, Ueda, T.
登録日2014-01-29
公開日2014-10-08
最終更新日2024-05-15
実験手法SOLUTION NMR
主引用文献Structure and mechanism of the primosome protein DnaT-functional structures for homotrimerization, dissociation of ssDNA from the PriB·ssDNA complex, and formation of the DnaT·ssDNA complex.
Febs J., 281, 2014
8H3E
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BU of 8h3e by Molmil
Complex structure of a small molecule (SPC-14) bound SARS-CoV-2 spike protein, closed state
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, 7-(6-nitro-2,3-dihydroindol-1-yl)-7-oxidanylidene-heptanoic acid, Spike glycoprotein,Fibritin
著者Meng, F, Wang, Q, Xie, Y, Ni, X, Huang, N.
登録日2022-10-08
公開日2023-03-22
実験手法ELECTRON MICROSCOPY (3.06 Å)
主引用文献In Silico Discovery of Small Molecule Modulators Targeting the Achilles' Heel of SARS-CoV-2 Spike Protein.
Acs Cent.Sci., 9, 2023
4V4R
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Crystal structure of the whole ribosomal complex.
分子名称: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ...
著者Petry, S, Brodersen, D.E, Murphy IV, F.V, Dunham, C.M, Selmer, M, Tarry, M.J, Kelley, A.C, Ramakrishnan, V.
登録日2005-09-30
公開日2014-07-09
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (5.9 Å)
主引用文献Crystal Structures of the Ribosome in Complex with Release Factors RF1 and RF2 Bound to a Cognate Stop Codon.
Cell(Cambridge,Mass.), 123, 2005
8H7H
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The crystal structure of human abl1 kinase domain in complex with abl1-A-EBA
分子名称: 5-[3-(6-methoxyisoquinolin-7-yl)-1H-pyrrolo[2,3-b]pyridin-5-yl]-N-methyl-N-prop-2-ynyl-pyridine-3-carboxamide, Tyrosine-protein kinase ABL1
著者Zhu, C.J, Zhang, Z.M.
登録日2022-10-20
公開日2023-03-22
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (2.27789712 Å)
主引用文献2-Ethynylbenzaldehyde-Based, Lysine-Targeting Irreversible Covalent Inhibitors for Protein Kinases and Nonkinases.
J.Am.Chem.Soc., 2023
5SPU
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BU of 5spu by Molmil
PanDDA analysis group deposition -- Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ZINC001364774273 - (S) isomer
分子名称: (3S)-1-(6-amino-5-methylpyridine-3-sulfonyl)piperidine-3-carboxamide, Non-structural protein 3
著者Correy, G.J, Fraser, J.S.
登録日2022-06-09
公開日2022-07-13
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (1.05 Å)
主引用文献Iterative computational design and crystallographic screening identifies potent inhibitors targeting the Nsp3 macrodomain of SARS-CoV-2.
Proc.Natl.Acad.Sci.USA, 120, 2023
2RRQ
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DNA oligomer containing propylene cross-linked cyclic 2'-deoxyuridylate dimer
分子名称: DNA (5'-D(*CP*CP*TP*TP*CP*AP*(JDT)P*TP*AP*CP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*GP*TP*AP*AP*TP*GP*AP*AP*GP*G)-3')
著者Furuita, K, Murata, S, Jee, J.G, Ichikawa, S, Matsuda, A, Kojima, C.
登録日2011-03-24
公開日2011-06-08
最終更新日2024-05-15
実験手法SOLUTION NMR
主引用文献Structural Feature of Bent DNA Recognized by HMGB1
J.Am.Chem.Soc., 133, 2011
4V8R
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BU of 4v8r by Molmil
The crystal structures of the eukaryotic chaperonin CCT reveal its functional partitioning
分子名称: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, MAGNESIUM ION, ...
著者Kalisman, N, Schroder, G.F, Levitt, M.
登録日2012-03-28
公開日2014-07-09
最終更新日2024-05-08
実験手法X-RAY DIFFRACTION (3.8 Å)
主引用文献The Crystal Structures of the Eukaryotic Chaperonin Cct Reveal its Functional Partitioning
Structure, 21, 2013
4V8Y
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Cryo-EM reconstruction of the 80S-eIF5B-Met-itRNAMet Eukaryotic Translation Initiation Complex
分子名称: 18S RIBOSOMAL RNA, 25S RIBOSOMAL RNA, 40S RIBOSOMAL PROTEIN S0-A, ...
著者Fernandez, I.S, Bai, X.C, Hussain, T, Kelley, A.C, Lorsch, J.R, Ramakrishnan, V, Scheres, S.H.W.
登録日2013-07-20
公開日2014-07-09
最終更新日2024-10-16
実験手法ELECTRON MICROSCOPY (4.3 Å)
主引用文献Molecular architecture of a eukaryotic translational initiation complex.
Science, 342, 2013
8HB8
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BU of 8hb8 by Molmil
Crystal structure of NAD-II riboswitch (single strand) with NMN
分子名称: BARIUM ION, BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE, RNA (55-MER)
著者Peng, X, Lilley, D.M.J, Huang, L.
登録日2022-10-27
公開日2023-03-22
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Crystal structures of the NAD+-II riboswitch reveal two distinct ligand-binding pockets.
Nucleic Acids Res., 51, 2023
5SPT
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BU of 5spt by Molmil
PanDDA analysis group deposition -- Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ZINC000850008207
分子名称: 2-(2-oxo-1,3-oxazolidin-3-yl)ethyl 7H-pyrrolo[2,3-d]pyrimidine-4-carboxylate, DIMETHYL SULFOXIDE, Non-structural protein 3
著者Correy, G.J, Fraser, J.S.
登録日2022-06-09
公開日2022-07-13
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (1.05 Å)
主引用文献Iterative computational design and crystallographic screening identifies potent inhibitors targeting the Nsp3 macrodomain of SARS-CoV-2.
Proc.Natl.Acad.Sci.USA, 120, 2023
8HH0
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BU of 8hh0 by Molmil
Peroxiredoxin from Thermococcus kodakaraensis (TkPrx) F42C/C46S/C205S/C211S mutant modified with 2-(bromoacetyl)naphthalene (Naph@TkPrx*F42C)
分子名称: 1-naphthalen-2-ylethanone, Peroxiredoxin
著者Himiyama, T, Hamaguchi, T, Yonekura, K, Nakamura, T.
登録日2022-11-16
公開日2023-03-22
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.35 Å)
主引用文献Unnaturally Distorted Hexagonal Protein Ring Alternatingly Reorganized from Two Distinct Chemically Modified Proteins.
Bioconjug.Chem., 2023
4V9K
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BU of 4v9k by Molmil
70S ribosome translocation intermediate GDPNP-I containing elongation factor EFG/GDPNP, mRNA, and tRNA bound in the pe*/E state.
分子名称: 23S ribosomal RNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ...
著者Zhou, J, Lancaster, L, Donohue, J.P, Noller, H.F.
登録日2013-04-24
公開日2014-07-09
最終更新日2023-12-06
実験手法X-RAY DIFFRACTION (3.5 Å)
主引用文献Crystal structures of EF-G-ribosome complexes trapped in intermediate states of translocation.
Science, 340, 2013
5SPS
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BU of 5sps by Molmil
PanDDA analysis group deposition -- Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with FRESH00012962804 - (S) isomer
分子名称: (3S)-6,6-dimethyl-1-(7H-pyrrolo[2,3-d]pyrimidine-4-carbonyl)piperidine-3-carboxylic acid, Non-structural protein 3
著者Correy, G.J, Fraser, J.S.
登録日2022-06-09
公開日2022-07-13
最終更新日2023-09-20
実験手法X-RAY DIFFRACTION (1.05 Å)
主引用文献Iterative computational design and crystallographic screening identifies potent inhibitors targeting the Nsp3 macrodomain of SARS-CoV-2.
Proc.Natl.Acad.Sci.USA, 120, 2023
2RIP
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BU of 2rip by Molmil
Structure of DPPIV in complex with an inhibitor
分子名称: (3R,4R)-4-(pyrrolidin-1-ylcarbonyl)-1-(quinoxalin-2-ylcarbonyl)pyrrolidin-3-amine, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
著者Qiu, X.
登録日2007-10-12
公開日2008-03-18
最終更新日2023-08-30
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献Design and synthesis of potent amido- and benzyl-substituted cis-3-amino-4-(2-cyanopyrrolidide)pyrrolidinyl DPP-IV inhibitors.
Bioorg.Med.Chem.Lett., 17, 2007
8GYX
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Cryo-EM structure of human CEPT1
分子名称: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate, Choline/ethanolaminephosphotransferase 1, MAGNESIUM ION
著者Qian, H.W, Wang, Z.H.
登録日2022-09-24
公開日2023-03-22
最終更新日2023-10-04
実験手法ELECTRON MICROSCOPY (3.7 Å)
主引用文献Structural basis for catalysis of human choline/ethanolamine phosphotransferase 1.
Nat Commun, 14, 2023
4V0V
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The crystal structure of mouse PP1G in complex with truncated human PPP1R15B (631-660)
分子名称: MANGANESE (II) ION, PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 15B, SERINE/THREONINE-PROTEIN PHOSPHATASE PP1-GAMMA CATALYTIC SUBUNIT, ...
著者Chen, R, Yan, Y, Casado, A.C, Ron, D, Read, R.J.
登録日2014-09-18
公開日2015-03-25
最終更新日2024-01-10
実験手法X-RAY DIFFRACTION (1.61 Å)
主引用文献G-actin provides substrate-specificity to eukaryotic initiation factor 2 alpha holophosphatases.
Elife, 4, 2015
8C38
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Contracted cowpea chlorotic mottle virus
分子名称: Capsid protein
著者Harder, O.F, Barrass, S.V, Drabbels, M, Lorenz, U.J.
登録日2022-12-23
公開日2023-10-18
実験手法ELECTRON MICROSCOPY (1.64 Å)
主引用文献Fast viral dynamics revealed by microsecond time-resolved cryo-EM.
Nat Commun, 14, 2023
8HCX
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Cryo-EM structure of Endothelin1-bound ETBR-Gq complex
分子名称: Endothelin receptor type B,Oplophorus-luciferin 2-monooxygenase catalytic subunit chimera, Endothelin-1, Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, ...
著者Yuan, Q, Jiang, Y, Xu, H.E, Ji, Y, Duan, J.
登録日2022-11-03
公開日2023-03-22
最終更新日2023-10-04
実験手法ELECTRON MICROSCOPY (3.5 Å)
主引用文献Structural basis of peptide recognition and activation of endothelin receptors.
Nat Commun, 14, 2023
4UVC
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LSD1(KDM1A)-CoREST in complex with 1-Phenyl-Tranylcypromine
分子名称: LYSINE-SPECIFIC HISTONE DEMETHYLASE 1A, REST COREPRESSOR 1, [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-[5-[(1S)-1-azanyl-1,3-diphenyl-propyl]-7,8-dimethyl-2,4-bis(oxidanylidene)-4aH-benzo[g]pteridin-10-yl]-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate
著者Vianello, P, Botrugno, O, Cappa, A, Ciossani, G, Dessanti, P, Mai, A, Mattevi, A, Meroni, G, Minucci, S, Thaler, F, Tortorici, M, Trifiro, P, Valente, S, Villa, M, Varasi, M, Mercurio, C.
登録日2014-08-05
公開日2014-09-10
最終更新日2024-01-10
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Synthesis, Biological Activity and Mechanistic Insights of 1-Substituted Cyclopropylamine Derivatives: A Novel Class of Irreversible Inhibitors of Histone Demethylase Kdm1A.
Eur.J.Med.Chem., 86C, 2014
2RT6
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Backbone 1H, 13C, and 15N Chemical Shift Assignments for PriC N-terminal domain
分子名称: Primosomal replication protein N''
著者Aramaki, T, Abe, Y, Katayama, T, Ueda, T.
登録日2013-04-24
公開日2013-08-07
最終更新日2024-05-15
実験手法SOLUTION NMR
主引用文献Solution structure of the N-terminal domain of a replication restart primosome factor, PriC, in Escherichia coli.
Protein Sci., 22, 2013

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