PDB: 225399 resultsInfo pagesStatus searchChemie searchBIRD

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7KI6	Structure of the HeV F glycoprotein in complex with the 1F5 neutralizing antibody Descriptor: 1F5 Fab light chain, 1F5 heavy chain, 2-acetamido-2-deoxy-beta-D-glucopyranose, ... Authors: Dang, H.V, Seattle Structural Genomics Center for Infectious Disease (SSGCID), Veesler, D. Deposit date: 2020-10-23 Release date: 2021-05-05 Last modified: 2021-06-23 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: Broadly neutralizing antibody cocktails targeting Nipah virus and Hendra virus fusion glycoproteins. Nat.Struct.Mol.Biol., 28, 2021
6S4O	The crystal structure of glycogen phosphorylase in complex with 9 Descriptor: (2~{R},3~{S},4~{R},5~{R},6~{S})-2-(hydroxymethyl)-6-(2-naphthalen-2-yl-1~{H}-imidazol-4-yl)oxane-3,4,5-triol, Glycogen phosphorylase, muscle form, ... Authors: Kyriakis, E, Solovou, T.G.A, Papaioannou, O.S.E, Skamnaki, V.T, Leonidas, D.D. Deposit date: 2019-06-28 Release date: 2020-02-19 Method: X-RAY DIFFRACTION (2.35 Å) Cite: The architecture of hydrogen and sulfur sigma-hole interactions explain differences in the inhibitory potency of C-beta-d-glucopyranosyl thiazoles, imidazoles and an N-beta-d glucopyranosyl tetrazole for human liver glycogen phosphorylase and offer new insights to structure-based design. Bioorg.Med.Chem., 28, 2020
8T0B	Novel Domain of Unknown Function Solved with AlphaFold Descriptor: DUF1842 domain-containing protein Authors: Miller, J.E, Cascio, D, Sawaya, M.R, Yeates, T.O. Deposit date: 2023-05-31 Release date: 2024-01-17 Last modified: 2024-04-10 Method: X-RAY DIFFRACTION (2.1 Å) Cite: AlphaFold-assisted structure determination of a bacterial protein of unknown function using X-ray and electron crystallography. Acta Crystallogr D Struct Biol, 80, 2024
7N8I	SARS-CoV-2 S (B.1.429 / epsilon variant) + S2M11 + S2L20 (Local Refinement of the NTD/S2L20) Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, S2L20 Fab Heavy Chain Variable Region, S2L20 Fab Light Chain Variable Region, ... Authors: McCallum, M, Seattle Structural Genomics Center for Infectious Disease (SSGCID), Veesler, D. Deposit date: 2021-06-14 Release date: 2021-07-14 Last modified: 2021-08-18 Method: ELECTRON MICROSCOPY (3 Å) Cite: SARS-CoV-2 immune evasion by the B.1.427/B.1.429 variant of concern. Science, 373, 2021
6RVD	Revised cryo-EM structure of the human 2:1 Ptch1-Shh complex Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... Authors: El Omari, K, Rudolf, A.F, Kowatsch, C, Malinauskas, T, Kinnebrew, M, Ansell, T.B, Bishop, B, Pardon, E, Schwab, R.A, Qian, M, Duman, R, Covey, D.F, Steyaert, J, Wagner, A, Sansom, M.S.P, Rohatgi, R, Siebold, C. Deposit date: 2019-05-31 Release date: 2019-10-02 Last modified: 2020-07-29 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: The morphogen Sonic hedgehog inhibits its receptor Patched by a pincer grasp mechanism. Nat.Chem.Biol., 15, 2019
7D2Z	Structure of sybody SR31 in complex with the SARS-CoV-2 S Receptor Binding domain (RBD) Descriptor: ACETATE ION, FORMIC ACID, GLYCEROL, ... Authors: Li, T, Cai, H, Yao, H, Qin, W, Li, D. Deposit date: 2020-09-17 Release date: 2021-02-17 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (1.97 Å) Cite: A high-affinity RBD-targeting nanobody improves fusion partner's potency against SARS-CoV-2. Plos Pathog., 17, 2021
7N62	SARS-CoV-2 Spike (2P) in complex with C12C9 Fab (NTD local reconstruction) Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, C12C9 Fab heavy chain, C12C9 Fab light chain, ... Authors: Windsor, I.W, Jenni, S, Bajic, G, Tong, P, Gautam, A.K, Wesemann, D.R, Harrison, S.C. Deposit date: 2021-06-07 Release date: 2021-08-04 Method: ELECTRON MICROSCOPY (4 Å) Cite: Memory B cell repertoire for recognition of evolving SARS-CoV-2 spike. Biorxiv, 2021
7D30	Structure of sybody MR17-SR31 fusion in complex with the SARS-CoV-2 S Receptor Binding domain (RBD) Descriptor: 1,3-BUTANEDIOL, ACETATE ION, CADMIUM ION, ... Authors: Li, T, Yao, H, Cai, H, Qin, W, Li, D. Deposit date: 2020-09-17 Release date: 2021-02-17 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.1 Å) Cite: A high-affinity RBD-targeting nanobody improves fusion partner's potency against SARS-CoV-2. Plos Pathog., 17, 2021
6S4R	The crystal structure of glycogen phosphorylase in complex with 11 Descriptor: (2~{R},3~{S},4~{R},5~{R},6~{S})-2-(hydroxymethyl)-6-(2-naphthalen-2-yl-1,3-thiazol-4-yl)oxane-3,4,5-triol, Glycogen phosphorylase, muscle form, ... Authors: Kyriakis, E, Papaioannou, O.S.E, Solovou, T.G.A, Skamnaki, V.T, Leonidas, D.D. Deposit date: 2019-06-28 Release date: 2020-02-19 Method: X-RAY DIFFRACTION (2.3 Å) Cite: The architecture of hydrogen and sulfur sigma-hole interactions explain differences in the inhibitory potency of C-beta-d-glucopyranosyl thiazoles, imidazoles and an N-beta-d glucopyranosyl tetrazole for human liver glycogen phosphorylase and offer new insights to structure-based design. Bioorg.Med.Chem., 28, 2020
4XMP	Crystal structure of broadly and potently neutralizing antibody VRC08 in complex with HIV-1 clade A strain Q842.d12 gp120 Descriptor: (R,R)-2,3-BUTANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160, ... Authors: Zhou, T, Srivatsan, S, Kwong, P.D. Deposit date: 2015-01-15 Release date: 2015-04-29 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.7831 Å) Cite: Maturation and Diversity of the VRC01-Antibody Lineage over 15 Years of Chronic HIV-1 Infection. Cell, 161, 2015
8FDQ	An AT-specific DNA 5-CGCAAATTTCGC-3' with benzimidazole (DB1476) complex Descriptor: 4,4'-(1H-benzimidazole-2,6-diyl)di(benzene-1-carboximidamide), DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3'), MAGNESIUM ION Authors: Ogboona, E.N, Wilson, W.D. Deposit date: 2022-12-04 Release date: 2023-02-22 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.54 Å) Cite: X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences. Acs Bio Med Chem Au, 3, 2023
5W1K	JUNV GP1 CR1-10 Fab CR1-28 Fab complex Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CR1-10 Fab heavy chain, ... Authors: Raymond, D.D, Clark, L.E, Abraham, J. Deposit date: 2017-06-03 Release date: 2018-05-30 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (3.99 Å) Cite: Vaccine-elicited receptor-binding site antibodies neutralize two New World hemorrhagic fever arenaviruses. Nat Commun, 9, 2018
4XCK	Vibrio cholerae O395 Ribokinase complexed with ADP, Ribose and Cesium ion. Descriptor: ADENOSINE-5'-DIPHOSPHATE, CESIUM ION, Ribokinase, ... Authors: Paul, R, Patra, M.D, Sen, U. Deposit date: 2014-12-18 Release date: 2015-01-21 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.37 Å) Cite: Crystal Structure of Apo and Ligand Bound Vibrio cholerae Ribokinase (Vc-RK): Role of Monovalent Cation Induced Activation and Structural Flexibility in Sugar Phosphorylation. Adv. Exp. Med. Biol., 842, 2015
4QTF	Structure and specificity of L-D-Transpeptidase from Mycobacterium tuberculosis and antibiotic resistance: Calcium binding promotes dimer formation Descriptor: (3S,5S)-3-({[(aminomethyl)amino]methyl}sulfanyl)-5-[(2S)-1,3-dioxobutan-2-yl]-L-proline, GLCNAC(BETA1-4)-MURNAC(1,6-ANHYDRO)-L-ALA-GAMMA-D-GLU-MESO-A2PM-D-ALA, L,d-transpeptidase LdtB Authors: Gokulan, K, Varughese, K.I. Deposit date: 2014-07-07 Release date: 2015-07-29 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2 Å) Cite: Structure and specificity of L-D-Transpeptidase from Mycobacterium tuberculosis and antibiotic resistance: Calcium binding promotes dimer formation To be Published
4ZLT	Crystal structure of viral chemokine binding protein R17 in complex with CCL3 Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, C-C motif chemokine 3, Putative uncharacterized protein Authors: Lubman, O.Y, Fremont, D.H. Deposit date: 2015-05-01 Release date: 2015-11-18 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (3 Å) Cite: Parallel Evolution of Chemokine Binding by Structurally Related Herpesvirus Decoy Receptors. Structure, 24, 2016
7ZF6	Omi-12 Fab Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CITRIC ACID, GLYCEROL, ... Authors: Zhou, D, Huo, J, Ren, J, Stuart, D.I. Deposit date: 2022-04-01 Release date: 2022-06-01 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.21 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZF9	SARS-CoV-2 Omicron BA.2 RBD in complex with COVOX-150 Fab (P21) Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-150 heavy chain, COVOX-150 light chain, ... Authors: Zhou, D, Huo, J, Ren, J, Stuart, D.I. Deposit date: 2022-04-01 Release date: 2022-06-01 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.25 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZRC	OMI-38 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Omi-38 Fab Heavy Chain, ... Authors: Duyvesteyn, H.M.E, Ren, J, Stuart, D.I. Deposit date: 2022-05-04 Release date: 2022-06-01 Last modified: 2022-06-22 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZR9	OMI-2 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE GLYCOPROTEIN Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Omi-2 Fab heavy chain, ... Authors: Duyvesteyn, H.M.E, Ren, J, Stuart, D.I. Deposit date: 2022-05-03 Release date: 2022-06-01 Last modified: 2022-06-22 Method: ELECTRON MICROSCOPY (4 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZFC	SARS-CoV-2 Beta RBD in complex with nanobody C1, Omi-18 and Omi-31 Fabs Descriptor: Nanobody C1, Omi-18 heavy chain, Omi-18 light chain, ... Authors: Zhou, D, Huo, J, Ren, J, Stuart, D.I. Deposit date: 2022-04-01 Release date: 2022-06-01 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.24 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZFB	SARS-CoV-2 Omicron RBD in complex with nanobody C1, Omi-18 and Omi-31 Fabs Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody C1, Omi-18 heavy chain, ... Authors: Zhou, D, Huo, J, Ren, J, Stuart, D.I. Deposit date: 2022-04-01 Release date: 2022-06-01 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.08 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZR7	OMI-42 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE GLYCOPROTEIN Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Omi-42 heavy chain, ... Authors: Duyvesteyn, H.M.E, Ren, J, Stuart, D.I. Deposit date: 2022-05-03 Release date: 2022-06-01 Last modified: 2023-11-22 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZF7	SARS-CoV-2 Omicron BA.2 RBD in complex with ACE2 Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, Spike protein S1, ... Authors: Zhou, D, Huo, J, Ren, J, Stuart, D.I. Deposit date: 2022-04-01 Release date: 2022-06-01 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (3.46 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
7ZR8	OMI-38 FAB IN COMPLEX WITH SARS-COV-2 BETA SPIKE RBD (local refinement) Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Omi-38 Fab light chain, Omi-38 fab heavy chain, ... Authors: Duyvesteyn, H.M.E, Ren, J, Stuart, D.I. Deposit date: 2022-05-03 Release date: 2022-06-01 Last modified: 2022-06-22 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: Potent cross-reactive antibodies following Omicron breakthrough in vaccinees. Cell, 185, 2022
4ZA8	Crystal structure of A niger Fdc1 in complex with penta-fluorocinnamic acid Descriptor: 1-deoxy-5-O-phosphono-1-(3,3,4,5-tetramethyl-9,11-dioxo-2,3,8,9,10,11-hexahydro-7H-quinolino[1,8-fg]pteridin-12-ium-7-y l)-D-ribitol, 1-deoxy-5-O-phosphono-1-[(10aR)-2,2,3,4-tetramethyl-8,10-dioxo-1,2,8,9,10,10a-hexahydro-6H-indeno[1,7-ef]pyrimido[4,5-b][1,4]diazepin-6-yl]-D-ribitol, MANGANESE (II) ION, ... Authors: Payne, K.A.P, Leys, D. Deposit date: 2015-04-13 Release date: 2015-06-17 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.06 Å) Cite: New cofactor supports alpha , beta-unsaturated acid decarboxylation via 1,3-dipolar cycloaddition. Nature, 522, 2015

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