User:Alexander Berchansky
From Proteopedia
(Difference between revisions)
| Line 22: | Line 22: | ||
*[[CRISPR-Cas9]] | *[[CRISPR-Cas9]] | ||
'''CRISPR-Cas:''' | '''CRISPR-Cas:''' | ||
| - | Class 1 | + | '''Class 1''' |
| - | + | CRISPR subtype I-A (Cascade) - SEE [[CRISPR subtype I-A]] | |
| - | + | CRISPR subtype I-B (Cascade) - SEE [[CRISPR subtype I-B]] | |
| - | + | CRISPR subtype I-C (Cascade) - SEE [[CRISPR subtype I-C]] | |
| - | + | CRISPR subtype I-E (Cascade) - SEE [[CRISPR type I-E (Cascade)|CRISPR subtype I-E]] | |
| - | + | CRISPR subtype I-F (Cascade) - SEE [[CRISPR subtype I-F]] | |
| - | + | CRISPR subtype III-A (Csm complex) - SEE [[CRISPR subtype III-A (Csm complex)]] | |
| - | + | CRISPR subtype III-B (Cmr complex) | |
| - | + | CRISPR subtype Orphan | |
| - | + | CRISPR type IV (Csf1) | |
| - | Class 2 | + | '''Class 2''' |
| - | + | CRISPR type II - SEE [[CRISPR-Cas9]] | |
| - | + | CRISPR type V (Cpf1) - SEE [[CRISPR type V]] | |
| - | + | CRISPR type VI (C2c2) | |
*[[CRISPR subtype I-A]] | *[[CRISPR subtype I-A]] | ||
*[[CRISPR subtype I-B]] | *[[CRISPR subtype I-B]] | ||
Revision as of 14:43, 16 July 2018
Dr. Alexander Berchansky, Ph.D., Israel Structural Proteomics Center, Weizmann Institute of Science
Interesting pages:
- Acetylcholinesterase
- AChE inhibitors and substrates
- Mutations in BRCA1/BARD1 RING-domain heterodimer
- Mutations in Brca1 BRCT Domains
- Lactate Dehydrogenase
- Missense Mutations in Phenylalanine Hydroxylase
- A hydrogen-bonding network formed by the B10-E7-E11 residues of a truncated hemoglobin from Tetrahymena pyriformis is critical for stability of bound oxygen and nitric oxide detoxification
- Phosphofructokinase (PFK)
- Alcohol dehydrogenase
- Beta-glucosidase
- BLUF domain protein
- AMP-activated protein kinase
- SUMO
- CRISPR-Cas Part I
- CRISPR-Cas Part II
- CRISPR-Cas9
CRISPR-Cas: Class 1 CRISPR subtype I-A (Cascade) - SEE CRISPR subtype I-A
CRISPR subtype I-B (Cascade) - SEE CRISPR subtype I-B
CRISPR subtype I-C (Cascade) - SEE CRISPR subtype I-C
CRISPR subtype I-E (Cascade) - SEE CRISPR subtype I-E
CRISPR subtype I-F (Cascade) - SEE CRISPR subtype I-F
CRISPR subtype III-A (Csm complex) - SEE CRISPR subtype III-A (Csm complex)
CRISPR subtype III-B (Cmr complex)
CRISPR subtype Orphan
CRISPR type IV (Csf1)
Class 2
CRISPR type II - SEE CRISPR-Cas9
CRISPR type V (Cpf1) - SEE CRISPR type V
CRISPR type VI (C2c2)
- CRISPR subtype I-A
- CRISPR subtype I-B
- CRISPR subtype I-C
- CRISPR type I-E (Cascade)
- CRISPR subtype I-F
- CRISPR subtype III-A (Csm complex)
- CRISPR subtype III-B (Cmr complex)
- CRISPR type V
- Flexibility of the flap in the active site of BACE1 as revealed by crystal structures and molecular dynamics simulations
- A DNA structural alphabet provides new insight into DNA flexibility
- Crystal structure of ADL1, a plant-specific homologue of the universal diaminopimelate amino transferase enzyme of lysine biosynthesis
- Structure of recombinant human carboxylesterase 1 isolated from whole cabbage looper larvae
- Fine tuning of chlorophyll spectra by protein-induced ring deformation
- Xanthine dehydrogenase
- N-Butylisocyanide Oxidation at the [NiFe4S4OHx]-cluster of CO Dehydrogenase
- Multifaceted SlyD from Helicobacter pylori: implication in [NiFe] hydrogenase maturation
- Potent Inhibition of Dinuclear Zinc(II) Peptidase, an Aminopeptidase from Aeromonas proteolytica, by 8-Quinolinol Derivatives: Inhibitor Design Based on Zn2+ Fluorophores, Kinetic, and X-ray Crystallographic Study
- Laue Crystal Structure of Shewanella oneidensis Cytochrome c Nitrite Reductase from a High-yield Expression System
- Peptidylglycine α-Hydroxylating Monooxygenase (PHM)-coordination of peroxide to CuM center. Structural and computational study
- Solution structure and dynamics of human S100A14
- The crystal structure of Sporosarcina pasteurii urease in a complex with citrate provides new hints for inhibitor design
- The mechanism of copper uptake by tyrosinase from Bacillus megaterium
- The crystal structure of an extracellular catechol oxidase from the ascomycete fungus Aspergillus oryzae
- Selectivity of Ni(II) and Zn(II) binding to Sporosarcina pasteurii UreE, a metallo-chaperone in the urease assembly: a calorimetric and crystallographic study
- Solution structure and metal ion binding sites of the human CPEB3 ribozyme's P4 domain
- Synthesis, characterization and binding properties towards CT-DNA and Lipoxygenase, of mixed ligand silver(I) complexes with 2-mercapto-thiazole and its derivatives and triphenylphosphine.
- Fluoride inhibition of Sporosarcina pasteurii urease: structure and thermodynamics
- Aromatic aldehydes at the active site of Aldehyde Oxidoreductase from Desulfovibrio gigas: Reactivity and Molecular Details of the Enzyme-Substrate and Enzyme-Product Interactions
- Crystallographic studies of [NiFe]-hydrogenase mutants: towards consensus structures for the elusive unready oxidized states
- High-resolution crystal structure of Z-DNA in complex with Cr3+ cations
- Structural Characterization of Metal Binding to a Cold-adapted Frataxin
- Conformational control of the binding of diatomic gases to cytochrome c’
- Analyzing the Catalytic Role of Active Site Residues in the Fe-Type Nitrile Hydratase from Comamonas testosteroni Ni1
- Structural characterization of zinc-bound Zmp1, a zinc-dependent metalloprotease secreted by Clostridium difficile
- Structural evidence for Arabidopsis glutathione transferase AtGSTF2 functioning as a transporter of small organic ligands
- Crystal structure of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione
- A DNA Structural Alphabet Distinguishes Structural Features of DNA Bound to Regulatory Proteins and in the Nucleosome Core Particle
- Structural and kinetic studies of imidazole binding to two members of the cytochrome c6 family reveal an important role for a conserved heme pocket residue
- Protein and metal cluster structure of the wheat metallothionein domain γ-Ec-1. The second part of the puzzle.
- Ferredoxin
- A Cryo-Crystallographic Time Course for Peroxide Reduction by Rubrerythrin from Pyrococcus furiosus
- Cyt1Aa Toxin: High Resolution Structure Reveals Implications for its Membrane-Perforating Function
- Catalytic metal ion rearrangements underline promiscuity and evolvability of a metalloenzyme
- Structure of estradiol metal chelate and estrogen receptor complex: The basis for designing a new class of SERMs
- Structural and functional insights into a dodecameric molecular machine – The RuvBL1/RuvBL2 complex
- Automated computational design of human enzymes for high bacterial expression and stability
- Antiviral Activity of 3(2H)- and 6-Chloro-3(2H)-Isoflavenes against Highly Diverged, Neurovirulent Vaccine-Derived, Type2 Poliovirus Sewage Isolates
- Structural Basis of Enzymatic Activity for the Ferulic Acid Decarboxylase (FADase) from Enterobacter sp. Px6-4
- Structural and functional characterization of the interaction of the photosensitizing probe methylene blue with Torpedo californica acetylcholinesterase
- The Impact of Crystallization Conditions on Structure-Based Drug Design: a Case Study on the Methylene Blue/Acetylcholinesterase Complex
- Structural basis of transcription activation
- Promiscuous Protein Binding as a Function of Protein Stability
- An Insight to the Dynamics of Conserved Water Mediated Salt Bridge Interaction and Inter-Domain Recognition in hIMPDH Isoforms
- Elucidation by NMR solution of neurotensin in Small Unilamellar Vesicle environment: molecular surveys for neurotensin receptor recognition
- Dominant-negative Effects in Prion Diseases: Insights from Molecular Dynamics Simulations on Mouse Prion Protein Chimeras
- Influence of divalent magnesium ion on DNA: molecular dynamics simulation studies
- Evidence-based docking of the urease activation complex
- Carbon monoxide binding to the heme group at the dimeric interface modulates structure and copper accessibility in the Cu,Zn superoxide dismutase from Haemophilus ducreyi: in silico and in vitro evidences
- Para-(benzoyl)-phenylalanine as a potential inhibitor against LpxC of Leptospira spp.: Homology modeling, docking and molecular dynamics study
- Drug resistance mechanism of PncA in Mycobacterium Tuberculosis
- Mechanism of BAG1 repair on Parkinson’s disease-linked DJ1 mutation
- Traditional Chinese medicine as dual guardians against hypertension and cancer?
- The molecular origin of the MMR-dependent apoptosis pathway from dynamics analysis of MutSα-DNA complexes
- The extracellular subunit interface of the 5-HT3 receptors: a computational alanine scanning mutagenesis study
- DNA Conformation and Energy in Nucleosome Core: A Theoretical Approach
- Molecular modeling study for conformational changes of Sirtuin 2 due to substrate and inhibitor binding
- Crystal structure of the CN-hydrolase SA0302 from the pathogenic bacterium Staphylococcus aureus belonging to the Nit and NitFhit Branch of the nitrilase superfamily
- Insight into TPMT*23 Mutation Mis-folding Using Molecular Dynamics Simulation and Protein Structure Analysis
- Identification of structural motifs in the E2 glycoprotein of Chikungunya involved in virus - host interaction
- Molecular dynamics simulations of the thermal stability of tteRBP and ecRBP
- Investigation on the Site-Selective Binding of Bovine Serum Albumin by Erlotinib Hydrochloride
- Interhelical loops within the bHLH domain are determinant in maintaining TWIST1-DNA complexes
- Investigation of Silent Information Regulator 1 (Sirt1) Agonists from Traditional Chinese Medicine
- Han ethnicity-specific type 2 diabetic treatment from traditional Chinese medicine?
- Conformational dynamics of full-length inducible human Hsp70 derived from microsecond molecular dynamics simulations in explicit solvent
- Non-specificity and synergy at the binding site of the carboplatin-induced DNA adduct via molecular dynamics simulations of the MutSα-DNA recognition complex
- A Possible Strategy against Head and Neck Cancer: In Silico. Investigation of Three-in-One inhibitors
- Structural Insights into the South African HIV-1 Subtype C Protease: Impact of hinge region dynamics and flap flexibility in drug resistance
- Memory-Enhancement by Traditional Chinese Medicine?
- The remarkable efficiency of a Pin-II proteinase inhibitor sans two conserved disulfide bonds is due to enhanced flexibility and hydrogen-bond density in the reactive loop
- Traditional Chinese medicine application in HIV: An in silico study
- Molecular Mechanism of HIV-1 gp120 Mutations That Reduce CD4 Binding Affinity
- Nicotinic Acetylcholine Receptor
- Cytochrome c
- Methotrexate
- Kemp elimination catalyst
- Urease
- Phosphoglycerate Kinase
- Plant-derived glucocerebrosidase
- NADH quinone oxidoreductase (NQO1) with inhibitor dicoumarol
- Matrix metalloproteinase
- Amino acid oxidase
- Mutant immunity protein 9 (variant R12-13)
- Acetylcholine binding protein
- Hydroxylase
- Actin
- Torpedo Californica Acetylcholinesterase in complex with an (R)-Tacrine-(10)-Hupyridone inhibitor
- Dronpa
- Major histocompatibility complex
- Mutant immunity protein 9 (variant R12-2)
- Butyrylcholinesterase
- Human acid-beta-glucosidase covalently bound to conduritol B epoxide
- Avidin
- Proteasome
- Human Acetylcholinesterase
- FK506 binding protein
- Insecticidal delta-endotoxin Cyt2Ba from Bacillus thuringiensis
- Ubiquitin protein ligase
- Catalase
- Albumin
- Aminopeptidase
- Staphylococcal nuclease
- Virus protease
- Asparaginase
- NAC transcription factor
- Kemp eliminase
- Antizyme Inhibitor
- NADPH-Cytochrome P450 Reductase
- Prolyl hydroxylase domain
- Neuraminidase
- Carbonic anhydrase
- Carboxypeptidase
- ABC transporter
- Ubiquitin
- Cytochrome P450
- TEM1-beta-Lactamase/beta-lactamase Inhibitor Protein (BLIP)
- Acid beta-glucosidase with N-butyl-deoxynojirimycin
- Treatment of Gaucher disease
- Acyl carrier protein synthase
- Chimeras of alcohol dehydrogenases
- Dihydrodipicolinate synthase
- Directed evolution
- Colicin Immunity Protein
- Human FKBP52
- Opioid receptor
- Acetylcholine
- Heat Shock Proteins
- Dioxygenase
- Flavodoxin
- Phospholipase A2
- Tyrosine kinase
- Cellobiohydrolase
- Acid phosphatase
- Neuroglobin
- Hirudin
- GTP-binding protein
- Aldehyde dehydrogenase
- Delta-endotoxin
- Beta-lactamase
- Estrogen receptor
- DNA-binding protein VirE2 from Agrobacterium tumefaciens complexed with chaperone VirE1
- Alkaline phosphatase
- Cathepsin
- Prolyl Endopeptidase
- Subtilisin
- Hyaluronidase
- Lysine-specific histone demethylase
- Glycolate oxidase
- Chaperonin
- Nucleoprotein
- Transcriptional activator
- Chitinase
- Cluster of Differentiation CD38
- Aricept Complexed with Acetylcholinesterase (Russian)
- Tubulin
- SAM-dependent methyltransferase
- Lignin peroxidase
- Gyrase
- Methylesterase
- CAMP-dependent protein kinase
- Choline Oxidase
- Kinesin
- Gelsolin
- DNA glycosylase
- Mitogen-activated protein kinase
- BtuB
- Botulinum neurotoxin
- Blue copper oxidase CueO
- Beta-phosphoglucomutase
- Beta-ketoacyl-ACP reductase
- Beta-adrenergic receptor kinase
- Barnase
- Bacteriorhodopsin
- BA42
- Azurin
- Avirulence protein
- Autophagy-related protein
- ATP-citrate synthase
- Atlastin
- Aspartoacylase
- Aspartate carbamoyltransferase
- Aspartate-semialdehyde dehydrogenase
- Ascorbate peroxidase
- Aromatic amine dehydrogenase
- Arginine kinase
- Antigen 85
- Anti-sigma factor antagonist
- Anthrax protective antigen
- Anthrax edema factor
- Annexin
- Aminotransferase
- Alpha-tubulin N-acetyltransferase
- Alpha-lytic protease
- Aldose Reductase
- Alanine racemase
- Agglutinin
- ADP-ribose pyrophosphatase
- Adenylosuccinate lyase
- Adenosine kinase
- Adenosine deaminase
- Adenosine A2A receptor
- Adaptin
- Acylaminoacyl peptidase
- Acyl carrier protein
- Acyl-CoA dehydrogenase
- Acetylxylan esterase
- Acetyl-CoA carboxylase
- Acetyl-CoA synthetase
- Acetyl-CoA synthase
- 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
- 6-aminohexanoate-dimer hydrolase
- 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase
- 7,8-dihydro-8-oxoguanine triphosphatase
- Cell division protein
- 12-oxophytodienoate reductase
- Alpha-glucosidase
- Apoptotic protease-activating factor
- Arginase
- Adhesin
- Arabinanase
- Biotin Protein Ligase
- Androgen receptor
- 14-3-3 protein
- 3C protease
- GTPase KRas
- 6-phosphogluconate dehydrogenase
- Mineralocorticoid receptor
- Thyroid hormone receptor
- Progesterone receptor
- Serpin
- Leucine transporter
- Microtubule-associated protein
- Ectonucleotide pyrophosphatase/phosphodiesterase
- Ribosome biogenesis protein
- Liver X receptor
- Nitrophorin
- VprBP
- Signal recognition particle receptor
- Liver receptor homolog-1
- Orexin and Orexin receptor
- Spindlin
- Prostaglandin E synthase
- Terminase
- Mandelate racemase/muconate lactonizing enzyme
- GABA(A) receptor-associated protein
- IspG
- Cytochrome P450 hydroxylase
- Period circadian protein
- Proteinase
- Sialyltransferase
- Thiolase
- Tripeptidyl peptidase
- Tryptophan synthase
- Rho GTPase activating protein
- Prostaglandin D synthase
- Prestin
- Polyamine oxidase
- Phosphotransferase
- Phosphodiesterase
- Plexin
- Plasminogen activator
- Plasmid segregation protein ParM
- Phospholipase C
- Phosphoenolpyruvate carboxylase
- Peptide N-glycanase
- Penicillopepsin
- Penicillin acylase
- PCSK9
- Paired box protein
- Oligopeptide-binding protein
- Nuclear receptor coactivator
- Neuropilin
- NADH peroxidase
- P63
- Leukotriene B4 hydroxydehydrogenase
- Leukocyte immunoglobulin-like receptor
- Alpha-lactalbumin
- 3-phosphoinositide-dependent protein kinase 1
- 2-isopropylmalate synthase
- Mur ligase
- Monooxygenase
- Vanillyl-alcohol oxidase
- Tumor necrosis factor
- Tumor necrosis factor receptor
- Mannosidase
- Transthyretin
- Transport inhibitor response 1
- Transducin
- L-rhamnose isomerase
- TRAIL
- Inosine monophosphate dehydrogenase
- Survivin
- UDP-N-acetylglucosamine acyltransferase
- Haptoglobin receptor
- Glutaminyl cyclase
- Severin
- Isoaspartyl dipeptidase
- Thiaminase
- Acetylcholinesterase with OTMA
- D275P mutant of alcohol dehydrogenase from protozoa Entamoeba histolytica
- Ferripyoverdine receptor
- Fatty acid-binding protein
- Rho-associated protein kinase
- Endonuclease
- Epoxidase
- Elastase
- N-acetylornithine carbamoyltransferase
- Ornithine carbamoyltransferase
- Pantothenate kinase
- Pantothenate synthetase
- Parvalbumin
- Dipeptidyl peptidase
- Transferrin
- Transketolase
- Dihydropteroate synthase
- Trichodiene synthase
- DAHP synthase
- Trehalulose synthase
- TRNA-guanine transglycosylase
- Cyclophilin
- Cutinase
- Trypanothione reductase
- Trypsin inhibitor
- Tryptase
- Tubulin tyrosine ligase
- Transaldolase
- Urokinase
- Undecaprenyl pyrophosphate synthase
- UDP-galactose 4-epimerase
- Uridine 5'-monophosphate synthase
- Arsenate reductase
- Rac
- Rho GTPase
- Dedicator of cytokinesis protein
- Phosphoribosylaminoimidazole carboxylase
- Retinoid isomerohydrolase
- Calcium uptake protein 1
- Abscisic acid receptor
- Apoptosis-inducing factor
- Nucleolin
- Aldo-keto reductase
- SAICAR synthetase
- Prolactin receptor
- Siderocalin
- Latrophilin
