Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

4LH6
DownloadVisualize
BU of 4lh6 by Molmil
Crystal structure of a LigA inhibitor
Descriptor: 4-amino-2-bromothieno[3,2-c]pyridine-7-carboxamide, ACETATE ION, BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE, ...
Authors:Benenato, K, Wang, H, Mcguire, H.M, Davis, H, Gao, N, Prince, D.B, Jahic, H, Stokes, S.S, Boriack-Sjodin, P.A.
Deposit date:2013-06-30
Release date:2013-12-25
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Identification through structure-based methods of a bacterial NAD(+)-dependent DNA ligase inhibitor that avoids known resistance mutations.
Bioorg.Med.Chem.Lett., 24, 2014
7RPW
DownloadVisualize
BU of 7rpw by Molmil
Archaeal DNA ligase and heterotrimeric PCNA in complex with adenylated DNA
Descriptor: ADENOSINE MONOPHOSPHATE, DNA ligase, DNA polymerase sliding clamp 1, ...
Authors:Sverzhinsky, A, Pascal, J.M.
Deposit date:2021-08-04
Release date:2021-11-17
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (4.38 Å)
Cite:Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase.
Structure, 30, 2022
7RPO
DownloadVisualize
BU of 7rpo by Molmil
Archaeal DNA ligase and heterotrimeric PCNA in complex with non-ligatable DNA
Descriptor: ADENOSINE MONOPHOSPHATE, DNA ligase, DNA polymerase sliding clamp 1, ...
Authors:Sverzhinsky, A, Pascal, J.M.
Deposit date:2021-08-03
Release date:2021-11-17
Last modified:2024-11-13
Method:ELECTRON MICROSCOPY (4.16 Å)
Cite:Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase.
Structure, 30, 2022
7RPX
DownloadVisualize
BU of 7rpx by Molmil
Archaeal DNA ligase and heterotrimeric PCNA in complex with end-joined DNA
Descriptor: DNA ligase, DNA polymerase sliding clamp 1, DNA polymerase sliding clamp 2, ...
Authors:Sverzhinsky, A, Pascal, J.M.
Deposit date:2021-08-04
Release date:2021-11-17
Last modified:2024-06-05
Method:ELECTRON MICROSCOPY (4.2 Å)
Cite:Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase.
Structure, 30, 2022
7UFP
DownloadVisualize
BU of 7ufp by Molmil
Structure of a pseudomurein peptide ligase type E from Methanothermus fervidus
Descriptor: Mur ligase middle domain protein, SULFATE ION, URIDINE-5'-DIPHOSPHATE
Authors:Carbone, V, Schofield, L.R, Sutherland-Smith, A.J, Ronimus, R.S, Subedi, B.P.
Deposit date:2022-03-23
Release date:2022-10-12
Last modified:2024-11-06
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural characterisation of methanogen pseudomurein cell wall peptide ligases homologous to bacterial MurE/F murein peptide ligases.
Microbiology (Reading, Engl.), 168, 2022
4E51
DownloadVisualize
BU of 4e51 by Molmil
Crystal structure of a histidyl-tRNA synthetase HisRS from Burkholderia thailandensis bound to histidine
Descriptor: HISTIDINE, Histidine--tRNA ligase
Authors:Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Deposit date:2012-03-13
Release date:2012-03-28
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Ligand co-crystallization of aminoacyl-tRNA synthetases from infectious disease organisms.
Sci Rep, 7, 2017
8RHZ
DownloadVisualize
BU of 8rhz by Molmil
Structure of CUL9-RBX1 ubiquitin E3 ligase complex in unneddylated conformation - symmetry expanded unneddylated dimer
Descriptor: Cullin-9, E3 ubiquitin-protein ligase RBX1, ZINC ION
Authors:Hopf, L.V.M, Horn-Ghetko, D, Prabu, J.R, Schulman, B.A.
Deposit date:2023-12-17
Release date:2024-04-17
Last modified:2024-07-31
Method:ELECTRON MICROSCOPY (3.37 Å)
Cite:Noncanonical assembly, neddylation and chimeric cullin-RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex.
Nat.Struct.Mol.Biol., 31, 2024
4LJP
DownloadVisualize
BU of 4ljp by Molmil
Structure of an active ligase (HOIP-H889A)/ubiquitin transfer complex
Descriptor: E3 ubiquitin-protein ligase RNF31, Polyubiquitin-C, ZINC ION
Authors:Rana, R.R, Stieglitz, B, Koliopoulos, M.G, Morris-Davies, A.C, Christodoulou, E, Howell, S, Brown, N.R, Rittinger, K.
Deposit date:2013-07-05
Release date:2013-10-16
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Structural basis for ligase-specific conjugation of linear ubiquitin chains by HOIP.
Nature, 503, 2013
8ST7
DownloadVisualize
BU of 8st7 by Molmil
Structure of E3 ligase VsHECT bound to ubiquitin
Descriptor: E3 ubiquitin-protein ligase SopA-like catalytic domain-containing protein, Ubiquitin, prop-2-en-1-amine
Authors:Franklin, T.G, Pruneda, J.N.
Deposit date:2023-05-09
Release date:2023-07-12
Last modified:2024-01-03
Method:X-RAY DIFFRACTION (1.44 Å)
Cite:Bacterial ligases reveal fundamental principles of polyubiquitin specificity.
Mol.Cell, 83, 2023
8ST9
DownloadVisualize
BU of 8st9 by Molmil
Structure of E3 ligase NleL bound to ubiquitin
Descriptor: E3 ubiquitin-protein ligase SopA, Ubiquitin, prop-2-en-1-amine
Authors:Franklin, T.G, Pruneda, J.N.
Deposit date:2023-05-09
Release date:2023-07-12
Last modified:2024-01-03
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Bacterial ligases reveal fundamental principles of polyubiquitin specificity.
Mol.Cell, 83, 2023
9FZX
DownloadVisualize
BU of 9fzx by Molmil
Rhizobium phage ligase
Descriptor: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ADENOSINE MONOPHOSPHATE, DNA, ...
Authors:Rothweiler, U, Williamson, A.
Deposit date:2024-07-06
Release date:2025-06-11
Method:X-RAY DIFFRACTION (2.196 Å)
Cite:Crystal structure of ATP-dependent DNA ligase from Rhizobium phage vB_RleM_P10VF.
Acta Crystallogr.,Sect.F, 81, 2025
8Q7E
DownloadVisualize
BU of 8q7e by Molmil
Structure of CUL9-RBX1 ubiquitin E3 ligase complex - hexameric assembly
Descriptor: Cullin-9, E3 ubiquitin-protein ligase RBX1
Authors:Hopf, L.V.M, Horn-Ghetko, D, Schulman, B.A.
Deposit date:2023-08-16
Release date:2024-04-17
Last modified:2024-07-31
Method:ELECTRON MICROSCOPY (4.4 Å)
Cite:Noncanonical assembly, neddylation and chimeric cullin-RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex.
Nat.Struct.Mol.Biol., 31, 2024
8Q7H
DownloadVisualize
BU of 8q7h by Molmil
Structure of CUL9-RBX1 ubiquitin E3 ligase complex in unneddylated and neddylated conformation - focused cullin dimer
Descriptor: Cullin-9, E3 ubiquitin-protein ligase RBX1, NEDD8, ...
Authors:Hopf, L.V.M, Horn-Ghetko, D, Schulman, B.A.
Deposit date:2023-08-16
Release date:2024-04-17
Last modified:2024-07-31
Method:ELECTRON MICROSCOPY (4.1 Å)
Cite:Noncanonical assembly, neddylation and chimeric cullin-RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex.
Nat.Struct.Mol.Biol., 31, 2024
3N84
DownloadVisualize
BU of 3n84 by Molmil
Crystal Structure of the Grb2 SH2 Domain in Complex with a 23-Membered Macrocyclic Ligand Having the Sequence pYVNVP
Descriptor: 23-membered peptide-like macrocyclic ligand, CHLORIDE ION, GLYCEROL, ...
Authors:Clements, J.H, Martin, S.F.
Deposit date:2010-05-27
Release date:2011-01-12
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (2 Å)
Cite:Thermodynamic and Structural Effects of Macrocyclization as a Constraining Method in Protein-Ligand Interactions.
ACS MED.CHEM.LETT., 1, 2010
4LJQ
DownloadVisualize
BU of 4ljq by Molmil
Crystal structure of the catalytic core of E3 ligase HOIP
Descriptor: E3 ubiquitin-protein ligase RNF31, ZINC ION
Authors:Stieglitz, B, Rana, R.R, Koliopoulos, M.G, Morris-Davies, A.C, Christodoulou, E, Howell, S, Brown, N.R, Rittinger, K.
Deposit date:2013-07-05
Release date:2013-10-16
Last modified:2024-11-06
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:Structural basis for ligase-specific conjugation of linear ubiquitin chains by HOIP.
Nature, 503, 2013
8ST8
DownloadVisualize
BU of 8st8 by Molmil
Structure of E3 ligase SopA bound to ubiquitin
Descriptor: E3 ubiquitin-protein ligase SopA, Ubiquitin, prop-2-en-1-amine
Authors:Franklin, T.G, Pruneda, J.N.
Deposit date:2023-05-09
Release date:2023-07-12
Last modified:2024-01-03
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Bacterial ligases reveal fundamental principles of polyubiquitin specificity.
Mol.Cell, 83, 2023
8D4X
DownloadVisualize
BU of 8d4x by Molmil
Structure of the human UBR5 HECT-type E3 ubiquitin ligase in a dimeric form
Descriptor: E3 ubiquitin-protein ligase UBR5, ZINC ION
Authors:Wang, F, He, Q, Lin, G, Li, H.
Deposit date:2022-06-02
Release date:2023-04-19
Last modified:2025-05-28
Method:ELECTRON MICROSCOPY (2.8 Å)
Cite:Structure of the human UBR5 E3 ubiquitin ligase.
Structure, 31, 2023
8AK4
DownloadVisualize
BU of 8ak4 by Molmil
Structure of the C-terminally truncated NAD+-dependent DNA ligase from the poly-extremophile Deinococcus radiodurans
Descriptor: DNA ligase, MANGANESE (II) ION, ZINC ION
Authors:Fernandes, A, Williamson, A.K, Matias, P.M, Moe, E.
Deposit date:2022-07-29
Release date:2023-09-27
Method:X-RAY DIFFRACTION (3.36 Å)
Cite:Structure/function studies of the NAD + -dependent DNA ligase from the poly-extremophile Deinococcus radiodurans reveal importance of the BRCT domain for DNA binding.
Extremophiles, 27, 2023
9DC3
DownloadVisualize
BU of 9dc3 by Molmil
AAV8 in complex with the AAVX affinity ligand
Descriptor: AAVX affinity ligand, Capsid protein
Authors:Mietzsch, M, McKenna, R.
Deposit date:2024-08-25
Release date:2024-11-27
Last modified:2025-01-01
Method:ELECTRON MICROSCOPY (2.31 Å)
Cite:Structural characterization and epitope mapping of the AAVX affinity purification ligand.
Mol Ther Methods Clin Dev, 32, 2024
4L9P
DownloadVisualize
BU of 4l9p by Molmil
Crystal structure of Aspergillus fumigatus protein farnesyltransferase complexed with the FII analog, FPT-II, and the KCVVM peptide
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, CaaX farnesyltransferase alpha subunit Ram2, ...
Authors:Mabanglo, M.F, Hast, M.A, Beese, L.S.
Deposit date:2013-06-18
Release date:2014-01-01
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Crystal structures of the fungal pathogen Aspergillus fumigatus protein farnesyltransferase complexed with substrates and inhibitors reveal features for antifungal drug design.
Protein Sci., 23, 2014
4LNG
DownloadVisualize
BU of 4lng by Molmil
Aspergillus fumigatus protein farnesyltransferase complex with farnesyldiphosphate and tipifarnib
Descriptor: 1,2-ETHANEDIOL, 6-[(S)-AMINO(4-CHLOROPHENYL)(1-METHYL-1H-IMIDAZOL-5-YL)METHYL]-4-(3-CHLOROPHENYL)-1-METHYLQUINOLIN-2(1H)-ONE, CaaX farnesyltransferase alpha subunit Ram2, ...
Authors:Mabanglo, M.F, Hast, M.A, Beese, L.S.
Deposit date:2013-07-11
Release date:2014-01-01
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (1.905 Å)
Cite:Crystal structures of the fungal pathogen Aspergillus fumigatus protein farnesyltransferase complexed with substrates and inhibitors reveal features for antifungal drug design.
Protein Sci., 23, 2014
4UYM
DownloadVisualize
BU of 4uym by Molmil
Crystal structure of sterol 14-alpha demethylase (CYP51B) from a pathogenic filamentous fungus Aspergillus fumigatus in complex with voriconazole
Descriptor: 14-ALPHA STEROL DEMETHYLASE, PROTOPORPHYRIN IX CONTAINING FE, Voriconazole
Authors:Hargrove, T.Y, Wawrzak, Z, Lepesheva, G.I.
Deposit date:2014-09-02
Release date:2015-08-19
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (2.55 Å)
Cite:Structure-Functional Characterization of Cytochrome P450 Sterol Alpha-Demethylase (Cyp51B) from Aspergillus Fumigatus and Molecular Basis for the Development of Antifungal Drugs
J.Biol.Chem., 290, 2015
4D05
DownloadVisualize
BU of 4d05 by Molmil
Structure and activity of a minimal-type ATP-dependent DNA ligase from a psychrotolerant bacterium
Descriptor: ADENOSINE MONOPHOSPHATE, ATP-DEPENDENT DNA LIGASE, MAGNESIUM ION, ...
Authors:Williamson, A, Rothweiler, U, Leiros, H.-K.S.
Deposit date:2014-04-24
Release date:2014-11-12
Last modified:2024-11-20
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Enzyme-Adenylate Structure of a Bacterial ATP-Dependent DNA Ligase with a Minimized DNA-Binding Surface
Acta Crystallogr.,Sect.D, 70, 2014
3PN1
DownloadVisualize
BU of 3pn1 by Molmil
Novel Bacterial NAD+-dependent DNA Ligase Inhibitors with Broad Spectrum Potency and Antibacterial Efficacy In Vivo
Descriptor: 1-(2,4-dimethylbenzyl)-6-oxo-1,6-dihydropyridine-3-carboxamide, 2-(butylsulfanyl)adenosine, DNA ligase
Authors:Mills, S, Eakin, A, Buurman, E, Newman, J, Gao, N, Huynh, H, Johnson, K, Lahiri, S, Shapiro, A, Walkup, G, Wei, Y, Stokes, S.
Deposit date:2010-11-18
Release date:2011-01-12
Last modified:2024-02-21
Method:X-RAY DIFFRACTION (2 Å)
Cite:Novel Bacterial NAD+-Dependent DNA Ligase Inhibitors with Broad-Spectrum Activity and Antibacterial Efficacy In Vivo.
Antimicrob.Agents Chemother., 55, 2011
6SAL
DownloadVisualize
BU of 6sal by Molmil
ROR(gamma)t ligand binding domain in complex with allosteric ligand FM26
Descriptor: 4-[(~{E})-[3-[2-chloranyl-6-(trifluoromethyl)phenyl]-5-(1~{H}-pyrrol-3-yl)-1,2-oxazol-4-yl]methylideneamino]benzoic acid, Nuclear receptor ROR-gamma
Authors:de Vries, R.M.J.M, Meijer, F.A, Doveston, R.G, Brunsveld, L.
Deposit date:2019-07-17
Release date:2019-12-25
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (1.61 Å)
Cite:Ligand-Based Design of Allosteric Retinoic Acid Receptor-Related Orphan Receptor gamma t (ROR gamma t) Inverse Agonists.
J.Med.Chem., 63, 2020

238582

数据于2025-07-09公开中

PDB statisticsPDBj update infoContact PDBjnumon