User:Alexander Berchansky

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*[[Aricept Complexed with Acetylcholinesterase (Russian)]]
*[[Aricept Complexed with Acetylcholinesterase (Russian)]]
*[[Prion]]
*[[Prion]]
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*[[Canine parvovirus]]
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*[[Viral capsids]]
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*[[Opioids]]
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*[[Journal:Acta Cryst D:S2059798320011869|Lattice-translocation defects in some specific crystals of the catalytic head domain of influenza neuraminidase]], Linghui Li, Shuliu Dai, George F. Gao and Jiawei Wang [http://dx.doi.org/10.1107/S2059798320011869 http://dx.doi.org/10.1107/S2059798320011869]
 +
*[[Proteins from Mycobacterium tuberculosis]]
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*[[Treatment of Tuberculosis]]
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*[[Iron–sulfur proteins]]
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*[[Hemeproteins]]
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*[[Neurotransmitters]]
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*[[Growth factors]]
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*[[Receptor]]
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*[[Hormones and their receptors]]
'''CRISPR-Cas (under development):'''
'''CRISPR-Cas (under development):'''
Line 77: Line 85:
CRISPR type VI (Cas13a (previously known as C2c2), Cas13b, Cas13c, Cas13d) - see [[CRISPR type VI]]
CRISPR type VI (Cas13a (previously known as C2c2), Cas13b, Cas13c, Cas13d) - see [[CRISPR type VI]]
-
*[[Journal:Acta Cryst D:S0907444911047251|Flexibility of the flap in the active site of BACE1 as revealed by crystal structures and molecular dynamics simulations]]
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*[[Journal:Protein Science:3|''Torpedo californica'' acetylcholinesterase is stabilized by binding of a divalent metal ion to a novel and versatile 4D motif]]
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*[[Journal:Acta Cryst D:S2059798318000050|A DNA structural alphabet provides new insight into DNA flexibility]]
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*[[Journal:IUCrJ:S2052252521005340|X-ray crystallography studies of RoAb13 bound to PIYDIN, a part of the CCR5 N-terminal domain]]
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*[[Journal:Acta Cryst F:S1744309112050270|Crystal structure of ADL1, a plant-specific homologue of the universal diaminopimelate amino transferase enzyme of lysine biosynthesis]]
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*[[Journal:Acta Cryst F:S2053230X20016015|Using Yeast Surface Display to Engineer a Soluble and Crystallizable Construct of HPK1]]
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*[[Journal:Acta Cryst F:S1744309112003326|Structure of recombinant human carboxylesterase 1 isolated from whole cabbage looper larvae]]
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*[[Journal:Acta Cryst D:S2059798320015004|The substrate binding in the bile acid transporter ASBT<sub>Yf</sub> of ''Yersinia frederiksenii'']]
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*[[Journal:Acta Cryst D:S205979832001517X|An engineered disulfide bridge traps and validates an outward-facing conformation in a bile acid transporter]]
 +
*[[Journal:Acta Cryst D:S2059798321003922|Structure of the human factor VIIa/soluble tissue factor with calcium, magnesium and rubidium]]
*[[Journal:Angew Chem Int Ed:1|Fine tuning of chlorophyll spectra by protein-induced ring deformation]]
*[[Journal:Angew Chem Int Ed:1|Fine tuning of chlorophyll spectra by protein-induced ring deformation]]
*[[Journal:JBIC:8|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]]
*[[Journal:JBIC:8|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]]
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*[[Journal:JBIC:13|{{nowrap|N-Butylisocyanide Oxidation}} at the {{nowrap|&#91;NiFe<sub>4</sub>S<sub>4</sub>OH<sub>x</sub>&#93;-cluster}} of CO Dehydrogenase]]
*[[Journal:JBIC:13|{{nowrap|N-Butylisocyanide Oxidation}} at the {{nowrap|&#91;NiFe<sub>4</sub>S<sub>4</sub>OH<sub>x</sub>&#93;-cluster}} of CO Dehydrogenase]]
*[[Journal:JBIC:14|Multifaceted SlyD from ''Helicobacter pylori'': implication in [NiFe] hydrogenase maturation]]
*[[Journal:JBIC:14|Multifaceted SlyD from ''Helicobacter pylori'': implication in [NiFe] hydrogenase maturation]]
 +
*[[Journal:Acta Cryst D:S2059798320014540|Statistically correcting dynamical electron scattering improves refinement of protein nanocrystals, including charge refinement of coordinated metals]]
*[[Journal:JBIC:15|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]]
*[[Journal:JBIC:15|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]]
*[[Journal:JBIC:16|Laue Crystal Structure of ''Shewanella oneidensis'' Cytochrome c Nitrite Reductase from a High-yield Expression System]]
*[[Journal:JBIC:16|Laue Crystal Structure of ''Shewanella oneidensis'' Cytochrome c Nitrite Reductase from a High-yield Expression System]]
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*[[Journal:JBSD:41|Molecular Mechanism of HIV-1 gp120 Mutations That Reduce CD4 Binding Affinity]]
*[[Journal:JBSD:41|Molecular Mechanism of HIV-1 gp120 Mutations That Reduce CD4 Binding Affinity]]
*[[Book:Structural Proteomics and its Impact on the Life Sciences:6]]‎
*[[Book:Structural Proteomics and its Impact on the Life Sciences:6]]‎
-
*[[Journal:IUCrJ:S2052252518018274|A cytosine modification mechanism revealed by the ternary complex structure of deoxycytidylate hydroxymethylase from bacteriophage T4 with its cofactor and substrate]]
+
*[[Journal:Acta Cryst D:S0907444911047251|Flexibility of the flap in the active site of BACE1 as revealed by crystal structures and molecular dynamics simulations]]
 +
*[[Journal:Acta Cryst D:S2059798318000050|A DNA structural alphabet provides new insight into DNA flexibility]]
 +
*[[Journal:Acta Cryst D:S2059798319000676|Crystal structures of pyrrolidone-carboxylate peptidase I from ''Deinococcus radiodurans'' reveal the mechanism of L-pyroglutamate recognition]]
*[[Journal:Acta Cryst D:S2059798318014900|Structure of the AmyC GH13 alpha-amylase from Alicyclobacillus sp, reveals accommodation of starch branching points in the alpha-amylase family]]
*[[Journal:Acta Cryst D:S2059798318014900|Structure of the AmyC GH13 alpha-amylase from Alicyclobacillus sp, reveals accommodation of starch branching points in the alpha-amylase family]]
*[[Journal:Acta Cryst D:S2059798318017047|The crystal structure of the N-acetylglucosamine 2-epimerase from Nostoc sp. KVJ10 reveals the true dimer]]
*[[Journal:Acta Cryst D:S2059798318017047|The crystal structure of the N-acetylglucosamine 2-epimerase from Nostoc sp. KVJ10 reveals the true dimer]]
*[[Journal:Acta Cryst D:S2059798318015322|Structure of ISG15 from the bat species Myotis davidii and the impact of interdomain ISG15 interactions on viral protein engagement]]
*[[Journal:Acta Cryst D:S2059798318015322|Structure of ISG15 from the bat species Myotis davidii and the impact of interdomain ISG15 interactions on viral protein engagement]]
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*[[Journal:Acta Cryst D:S2059798319000214|In-house high energy remote SAD-phasing using the magic triangle: how to tackle the P1 low symmetry using multiple orientations on the same human IBA57 crystal to increase multiplicity]]
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*[[Journal:Acta Cryst D:S2059798319002912|Crystal structure of the pseudoenzyme PDX1.2 in complex with its cognate enzyme PDX1.3]]
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*[[Journal:Acta Cryst D:S2059798319007113|Crystal Structure Determination of ''Pseudomonas stutzeri'' A1501 endoglucanase Cel5A]]
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*[[Journal:Acta Cryst D:S2059798319006995|Structural insight into a matured humanized monoclonal antibody HuA21 against HER2-overexpressing cancer cells]]
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*[[Journal:Acta Cryst D:S2059798319002304|The third structural switch in the molecule of archaeal translation initiation factor 2 and its possible role in initiation of GTP hydrolysis and removal of aIF2 from the ribosome]]
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*[[Journal:Acta Cryst D:S2059798319004169|Structural and functional insights into phosphomannose isomerase]]
*[[Journal:Acta Cryst F:S2053230X18016217|The structure of ''Mycobacterium tuberculosis'' HtrA reveals an auto-regulatory mechanism]]
*[[Journal:Acta Cryst F:S2053230X18016217|The structure of ''Mycobacterium tuberculosis'' HtrA reveals an auto-regulatory mechanism]]
*[[Journal:Acta Cryst F:S2053230X18014814|Crystal structure and kinetic analyses of a hexameric form of (S)-3-hydroxybutyryl-CoA dehydrogenase from Clostridium acetobutylicum]]
*[[Journal:Acta Cryst F:S2053230X18014814|Crystal structure and kinetic analyses of a hexameric form of (S)-3-hydroxybutyryl-CoA dehydrogenase from Clostridium acetobutylicum]]
-
# [[Journal:BMC:3|Identification of novel isocytosine derivatives as xanthine oxidase inhibitors from a set of virtual screening hits]], Chandrika B-Rao, Asha Kulkarni-Almeida, Kamlesh V. Katkar, Smriti Khanna, Usha Ghosh, Ashish Keche, Pranay Shah, Ankita Srivastava, Vaidehi Korde, Kumar V. S. Nemmani, Nitin J. Deshmukh, Amol Dixit, Manoja K. Brahma, Umakant Bahirat, Lalit Doshi, Rajiv Sharma, H. Sivaramakrishnan [http://www.ncbi.nlm.nih.gov/pubmed/22483591 http://www.ncbi.nlm.nih.gov/pubmed/22483591]
+
*[[Journal:Acta Cryst F:S2053230X19000815|Crystal structure of Type VI immunity protein Tdi1 (Atu4351) from Agrobacterium tumefaciens]]
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*[[Journal:Acta Cryst F:S2053230X19004151|Phasing with calcium at home]]
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*[[Journal:Acta Cryst F:S2053230X19001213|Substrate analogue complex structure of ''Mycobacterium tuberculosis'' decaprenyl diphosphate synthase]]
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*[[Journal:Acta Cryst F:S2053230X19004618|Novel T9 loop interaction of Filamenting Temperature-sensitive mutant Z from ''Mycobacterium tuberculosis'']]
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*[[Journal:Acta Cryst F:S1744309112050270|Crystal structure of ADL1, a plant-specific homologue of the universal diaminopimelate amino transferase enzyme of lysine biosynthesis]]
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*[[Journal:Acta Cryst F:S2053230X19002863|Functional and structural characterization of IdnL7, an adenylation enzyme involved in incednine biosynthesis]]
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*[[Journal:Acta Cryst F:S2053230X19004424|Structure of the Ebola virus nucleoprotein - RNA complex]]
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*[[Journal:Acta Cryst F:S1744309112003326|Structure of recombinant human carboxylesterase 1 isolated from whole cabbage looper larvae]]
 +
*[[Journal:Acta Cryst F:S2053230X18018083|An assessment of three human methylenetetrahydrofolate dehydrogenase/cyclohydrolase ligand complexes following further refinement]]
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*[[Journal:Acta Cryst F:S2053230X19002693|Crystal structure of phosphoribulokinase from ''Synechococcus sp.'' strain PCC 6301]]
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*[[Journal:Acta Cryst F:S1744309112003326|Structure of recombinant human carboxylesterase 1 isolated from whole cabbage looper larvae]]
 +
*[[Journal:Acta Cryst F:S2053230X19007192|Crystal Structure of Flavin Dependent Thymidylate Synthase, Thy1, from ''Thermus thermophilus'' having an Extra C Terminal Domain]]
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*[[Journal:BMC:3|Identification of novel isocytosine derivatives as xanthine oxidase inhibitors from a set of virtual screening hits]]
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*[[Journal:FEBS Open Bio:2|Structural evidence for Arabidopsis glutathione transferase AtGSTF2 functioning as a transporter of small organic ligands]]
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*[[Journal:IUCrJ:S2052252519002926|Determination of the Molecular Basis for Coprogen Import by Gram Negative Bacteria]]
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*[[Journal:IUCrJ:S2052252519001568|Structure of mammalian plasma fetuin-B and its mechanism of selective metallopeptidase inhibition]]
 +
*[[Journal:IUCrJ:S2052252518018274|A cytosine modification mechanism revealed by the ternary complex structure of deoxycytidylate hydroxymethylase from bacteriophage T4 with its cofactor and substrate]]
 +
*[[Journal:IUCrJ:S2052252519005372|The structural characterisation of a glucosylglycerate hydrolase provides insights into the molecular mechanism of mycobacterial recovery from nitrogen starvation]]
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*[[Journal:IUCrJ:S2052252519005761|Room-temperature photo-induced martensitic transformation in a protein crystal]]
*[[SUMO]]
*[[SUMO]]
*[[EPSP synthase]]
*[[EPSP synthase]]
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*[[Torpedo californica acetylcholinesterase with alkylene-linked tacrine dimer (5 carbon linker)]]
*[[Torpedo californica acetylcholinesterase with alkylene-linked tacrine dimer (5 carbon linker)]]
*[[Thioredoxin Glutathione Reductase]]
*[[Thioredoxin Glutathione Reductase]]
 +
*[[Journal:PMC:1]]

Current revision

Dr. Alexander Berchansky, Ph.D., Israel Structural Proteomics Center, Weizmann Institute of Science

My interesting pages:

CRISPR-Cas (under development):

Classification according to the Wikipedia page CRISPR [1] with additions

CRISPR Class 1 uses a complex of multiple Cas proteins

CRISPR type I (Cas3)

CRISPR type I-A (Cascade) - see CRISPR subtype I-A

CRISPR type I-B (Cascade) - see CRISPR subtype I-B

CRISPR type I-C (Cascade) - see CRISPR subtype I-C

CRISPR type I-D (Cas10d)

CRISPR type I-E (Cascade) - see CRISPR subtype I-E

CRISPR type I-F (Csy1, Csy2, Csy3) - see CRISPR subtype I-F

CRISPR type I-U (GSU0054)

CRISPR type III (Cas10)

CRISPR type III-A (Csm complex) - see CRISPR subtype III-A (Csm complex)

CRISPR type III-B (Cmr complex)

CRISPR type III-C (Cas10 or Csx11)

CRISPR type III-D (Csx10)

CRISPR type Orphan

CRISPR type IV (Csf1)

CRISPR type IV-A

CRISPR type IV-B

CRISPR Class 2 uses a single large Cas protein

CRISPR type II-A - see CRISPR-Cas9

CRISPR type II-B (Cas4)

CRISPR type II-C

CRISPR type V (Cpf1, C2c1, C2c3) - see CRISPR type V

CRISPR type VI (Cas13a (previously known as C2c2), Cas13b, Cas13c, Cas13d) - see CRISPR type VI

Proteopedia Page Contributors and Editors (what is this?)

Alexander Berchansky, Eran Hodis

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