Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help
Search by PDB author
7DFH
DownloadVisualize
BU of 7dfh by Molmil
Structure of COVID-19 RNA-dependent RNA polymerase bound to ribavirin
Descriptor: MAGNESIUM ION, Non-structural protein 7, Non-structural protein 8, ...
Authors:Li, Z, Zhou, Z, Yu, X.
Deposit date:2020-11-08
Release date:2021-11-17
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (2.97 Å)
Cite:Structural basis for repurpose and design of nucleotide drugs for treating COVID-19
To Be Published
7DOK
DownloadVisualize
BU of 7dok by Molmil
Structure of COVID-19 RNA-dependent RNA polymerase (extended conformation) bound to penciclovir
Descriptor: MAGNESIUM ION, Non-structural protein 7, Non-structural protein 8, ...
Authors:Li, Z, Yu, X.
Deposit date:2020-12-14
Release date:2021-12-15
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (2.73 Å)
Cite:Structural basis for repurpose and design of nucleotide drugs for treating COVID-19
To Be Published
7DOI
DownloadVisualize
BU of 7doi by Molmil
Structure of COVID-19 RNA-dependent RNA polymerase bound to penciclovir.
Descriptor: MAGNESIUM ION, Non-structural protein 7, Non-structural protein 8, ...
Authors:Li, Z, Yu, X.
Deposit date:2020-12-14
Release date:2021-12-15
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (2.6 Å)
Cite:Structural basis for repurpose and design of nucleotide drugs for treating COVID-19
To Be Published
7D6H
DownloadVisualize
BU of 7d6h by Molmil
Crystal structure of the SARS-CoV-2 papain-like protease (PLPro) C112S mutant
Descriptor: PHOSPHATE ION, Papain-like protease, ZINC ION
Authors:Liu, J, Wang, Y, Pan, L.
Deposit date:2020-09-30
Release date:2020-11-04
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Development of potent and selective inhibitors targeting the papain-like protease of SARS-CoV-2.
Cell Chem Biol, 28, 2021
7X2H
DownloadVisualize
BU of 7x2h by Molmil
Crystal structure of SARS-CoV-2 spike receptor-binding domain bound with 6-2C Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 6-2C H chain, 6-2C L chain, ...
Authors:Wang, X, Wang, Z.
Deposit date:2022-02-25
Release date:2023-03-01
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Inactivated vaccine-elicited potent antibodies can broadly neutralize SARS-CoV-2 circulating variants.
Nat Commun, 14, 2023
7XD2
DownloadVisualize
BU of 7xd2 by Molmil
SARS-CoV-2 S ectodomain trimer in complex with neutralizing antibody 10-5B
Descriptor: H chain of antibody 10-5B, L chian of antibody 10-5B, Spike glycoprotein
Authors:Wang, X, Wang, Z.
Deposit date:2022-03-26
Release date:2023-07-12
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Inactivated vaccine-elicited potent antibodies can broadly neutralize SARS-CoV-2 circulating variants.
Nat Commun, 14, 2023
5XK0
DownloadVisualize
BU of 5xk0 by Molmil
Structure of 8-mer DNA2
Descriptor: DNA (5'-D(*GP*CP*CP*CP*GP*AP*GP*C)-3')
Authors:Liu, H.H, Gan, J.H.
Deposit date:2017-05-04
Release date:2017-12-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.451 Å)
Cite:A DNA Structure Containing AgI -Mediated G:G and C:C Base Pairs
Angew. Chem. Int. Ed. Engl., 56, 2017
6M08
DownloadVisualize
BU of 6m08 by Molmil
Crystal structure of Lp-PLA2 in complex with a novel covalent inhibitor.
Descriptor: (2S)-2-[(Z)-3-[2-(diethylamino)ethyl-[[4-[4-(trifluoromethyl)phenyl]phenyl]methyl]amino]-1-oxidanyl-3-oxidanylidene-prop-1-enyl]pyrrolidine-1-carboxylic acid, Platelet-activating factor acetylhydrolase
Authors:Hu, H.C, Xu, Y.C.
Deposit date:2020-02-20
Release date:2020-12-30
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.19 Å)
Cite:Identification of Highly Selective Lipoprotein-Associated Phospholipase A2 (Lp-PLA2) Inhibitors by a Covalent Fragment-Based Approach.
J.Med.Chem., 63, 2020
5XJZ
DownloadVisualize
BU of 5xjz by Molmil
Structure of DNA1-Ag complex
Descriptor: DNA (5'-D(*GP*CP*AP*CP*GP*CP*GP*C)-3'), SILVER ION, SPERMINE
Authors:Liu, H.H, Gan, J.H.
Deposit date:2017-05-04
Release date:2017-12-06
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (0.98 Å)
Cite:A DNA Structure Containing AgI -Mediated G:G and C:C Base Pairs
Angew. Chem. Int. Ed. Engl., 56, 2017
6A85
DownloadVisualize
BU of 6a85 by Molmil
Crystal structure of a novel DNA quadruplex
Descriptor: AMMONIUM ION, DNA (5'-D(*AP*GP*AP*GP*AP*GP*AP*TP*GP*GP*GP*TP*GP*CP*GP*TP*T)-3'), LEAD (II) ION, ...
Authors:Liu, H.H, Gan, J.H.
Deposit date:2018-07-06
Release date:2019-03-06
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:High-resolution DNA quadruplex structure containing all the A-, G-, C-, T-tetrads.
Nucleic Acids Res., 46, 2018
5XK1
DownloadVisualize
BU of 5xk1 by Molmil
Structure of 8-mer DNA3
Descriptor: DNA (5'-D(*GP*GP*AP*GP*CP*CP*CP*C)-3')
Authors:Liu, H.H, Gan, J.H.
Deposit date:2017-05-04
Release date:2017-12-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.501 Å)
Cite:A DNA Structure Containing AgI -Mediated G:G and C:C Base Pairs.
Angew. Chem. Int. Ed. Engl., 56, 2017
7YZY
DownloadVisualize
BU of 7yzy by Molmil
pMMO structure from native membranes by cryoET and STA
Descriptor: Methane monooxygenase subunit C2, Particulate methane monooxygenase alpha subunit, Particulate methane monooxygenase beta subunit
Authors:Zhu, Y, Ni, T, Zhang, P.
Deposit date:2022-02-21
Release date:2022-08-10
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (4.8 Å)
Cite:Structure and activity of particulate methane monooxygenase arrays in methanotrophs.
Nat Commun, 13, 2022
7DNO
DownloadVisualize
BU of 7dno by Molmil
Characterization of Peptide Ligands Against WDR5 Isolated Using Phage Display Technique
Descriptor: CYS-ARG-THR-LEU-PRO-PHE, WD repeat-containing protein 5
Authors:Cao, J, Cao, D, Xiong, B, Li, Y, Fan, T.
Deposit date:2020-12-10
Release date:2021-02-10
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.03 Å)
Cite:Phage-Display Based Discovery and Characterization of Peptide Ligands against WDR5.
Molecules, 26, 2021
8F6R
DownloadVisualize
BU of 8f6r by Molmil
CryoEM structure of designed modular protein oligomer C6-79
Descriptor: De novo designed oligomeric protein C6-79
Authors:Redler, R.L, Edman, N.I, Baker, D, Ekiert, D, Bhabha, G.
Deposit date:2022-11-17
Release date:2023-11-29
Last modified:2024-06-26
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies.
Cell, 2024
7DPV
DownloadVisualize
BU of 7dpv by Molmil
SARS-CoV-2 3CL protease (3CLpro) in complex with 7-O-methyl-dihydromyricetin
Descriptor: (2S,3S)-3,5-dihydroxy-7-methoxy-2-(3,4,5-trihydroxyphenyl)chroman-4-one, 3C-like proteinase
Authors:Su, H.X, Zhao, W.F, Xie, H, Li, M.J, Xu, Y.C.
Deposit date:2020-12-21
Release date:2021-05-12
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Identification of pyrogallol as a warhead in design of covalent inhibitors for the SARS-CoV-2 3CL protease.
Nat Commun, 12, 2021
7DPU
DownloadVisualize
BU of 7dpu by Molmil
SARS-CoV-2 3CL protease (3CLpro) in complex with 7-O-methyl-myricetin
Descriptor: 3C-like proteinase, 7-methoxy-3,5-bis(oxidanyl)-2-[3,4,5-tris(oxidanyl)phenyl]chromen-4-one, GLYCEROL
Authors:Su, H.X, Zhao, W.F, Xie, H, Li, M.J, Xu, Y.C.
Deposit date:2020-12-21
Release date:2021-05-12
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Identification of pyrogallol as a warhead in design of covalent inhibitors for the SARS-CoV-2 3CL protease.
Nat Commun, 12, 2021
7DPP
DownloadVisualize
BU of 7dpp by Molmil
SARS-CoV-2 3CL protease (3CLpro) in complex with myricetin
Descriptor: 3,5,7-TRIHYDROXY-2-(3,4,5-TRIHYDROXYPHENYL)-4H-CHROMEN-4-ONE, 3C-like proteinase
Authors:Su, H.X, Zhao, W.F, Xie, H, Li, M.J, Xu, Y.C.
Deposit date:2020-12-21
Release date:2021-05-12
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Identification of pyrogallol as a warhead in design of covalent inhibitors for the SARS-CoV-2 3CL protease.
Nat Commun, 12, 2021
8X43
DownloadVisualize
BU of 8x43 by Molmil
human KCNQ2-CaM-Ebio1-S1 complex in the presence of PIP2
Descriptor: Calmodulin-1, N-(4-azanyl-1,2-dihydroacenaphthylen-5-yl)-4-fluoranyl-benzamide, Potassium voltage-gated channel subfamily KQT member 2
Authors:Ma, D, Guo, J.
Deposit date:2023-11-15
Release date:2024-01-17
Last modified:2024-07-17
Method:ELECTRON MICROSCOPY (3 Å)
Cite:A small-molecule activation mechanism that directly opens the KCNQ2 channel.
Nat.Chem.Biol., 20, 2024
9EOU
DownloadVisualize
BU of 9eou by Molmil
Crystal Structure of the b1b2 domains from Human Neuropilin-1 in complex with a peptide.
Descriptor: Neuropilin-1, Osteopontin
Authors:Caing-Carlsson, R, Duelli, A, Walse, B.
Deposit date:2024-03-15
Release date:2024-06-26
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Identification of an osteopontin-derived peptide that binds neuropilin-1 and activates vascular repair responses and angiogenesis.
Pharmacol Res, 205, 2024
5LRM
DownloadVisualize
BU of 5lrm by Molmil
Structure of di-zinc MCR-1 in P41212 space group
Descriptor: GLYCEROL, ZINC ION, phosphatidylethanolamine transferase Mcr-1
Authors:Hinchliffe, P, Spencer, J.
Deposit date:2016-08-19
Release date:2016-12-07
Last modified:2024-05-01
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Insights into the Mechanistic Basis of Plasmid-Mediated Colistin Resistance from Crystal Structures of the Catalytic Domain of MCR-1.
Sci Rep, 7, 2017
5LRN
DownloadVisualize
BU of 5lrn by Molmil
Structure of mono-zinc MCR-1 in P21 space group
Descriptor: GLYCEROL, Phosphatidylethanolamine transferase Mcr-1, ZINC ION
Authors:Hinchliffe, P, Paterson, N.G, Spencer, J.
Deposit date:2016-08-19
Release date:2016-12-07
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Insights into the Mechanistic Basis of Plasmid-Mediated Colistin Resistance from Crystal Structures of the Catalytic Domain of MCR-1.
Sci Rep, 7, 2017
8F6Q
DownloadVisualize
BU of 8f6q by Molmil
CryoEM structure of designed modular protein oligomer C8-71
Descriptor: C8-71
Authors:Redler, R.L, Edman, N.I, Baker, D, Ekiert, D, Bhabha, G.
Deposit date:2022-11-17
Release date:2023-11-29
Last modified:2024-06-19
Method:ELECTRON MICROSCOPY (3.6 Å)
Cite:Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies.
Biorxiv, 2023
5ILA
DownloadVisualize
BU of 5ila by Molmil
Deg9 protease domain
Descriptor: Protease Do-like 9
Authors:Ouyang, M, Liu, L, Li, X.Y, Zhao, S, Zhang, L.X.
Deposit date:2016-03-04
Release date:2017-03-08
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.001 Å)
Cite:The crystal structure of Deg9 reveals a novel octameric-type HtrA protease
Nat Plants, 3, 2017
5XZR
DownloadVisualize
BU of 5xzr by Molmil
The atomic structure of SHP2 E76A mutant in complex with allosteric inhibitor 9b
Descriptor: 4-(3-phenylphenyl)-N-(2,2,6,6-tetramethylpiperidin-4-yl)-1,3-thiazol-2-amine, Tyrosine-protein phosphatase non-receptor type 11
Authors:Li, D, Xie, J, Zhu, J, Liu, C.
Deposit date:2017-07-13
Release date:2017-12-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Allosteric Inhibitors of SHP2 with Therapeutic Potential for Cancer Treatment.
J. Med. Chem., 60, 2017
6IZQ
DownloadVisualize
BU of 6izq by Molmil
PRMT4 bound with a bicyclic compound
Descriptor: (2R)-1-(methylamino)-3-(1,3,4,5-tetrahydro-2-benzazepin-2-yl)propan-2-ol, Histone-arginine methyltransferase CARM1
Authors:Xiong, B, Cao, D.Y, Guo, Z.H, Li, Y.L, Li, J, Huang, X, Shen, J.K.
Deposit date:2018-12-20
Release date:2019-12-25
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (2.449 Å)
Cite:Design and Synthesis of Potent, Selective Inhibitors of Protein Arginine Methyltransferase 4 against Acute Myeloid Leukemia.
J.Med.Chem., 62, 2019

222624

PDB entries from 2024-07-17

PDB statisticsPDBj update infoContact PDBjnumon