Talk:CRISPR-Cas9

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List of figures: CRISPR-Cas9

--Karsten Theis 01:51, 20 July 2019 (UTC)

Initial view

script: https://proteopedia.org/wiki/scripts/74/742625/Cv3/13.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?14e7e6b27144899555581f95781095d3 (always reloads)

Domain organization of nuclease lobe of Cas9 from S. pyogenes

script: https://proteopedia.org/wiki/scripts/74/746096/Cv3/1.spt

coords: same as Initial view (always reloads)


crRNA and tracrRNA can be joined end-to-end and transcribed as a single guide RNA (sgRNA)

script: https://proteopedia.org/wiki/scripts/74/742625/Cv3/8.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?390674a1fe8f149d2a471a66257db804 (always reloads)


Cas9-sgRNA-target DNA complex from Streptococcus pyogenes

script: https://proteopedia.org/wiki/scripts/74/742625/Cv/42.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?24390165f6e745806f0ed99c67de2118 (always reloads)


Cas9-sgRNA-target DNA complex from Streptococcus pyogenes

script: https://proteopedia.org/wiki/scripts/74/742625/Cv2/12.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?9dbb58242e693852cd408648accf59ea (always reloads)


Cas9-sgRNA-target DNA complex from Francisella tularensis

script: https://proteopedia.org/wiki/scripts/74/742625/Cv2/13.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?0a7d3ac27b1d671cca434c9eff24c49c (always reloads)


Cas9-sgRNA-target DNA complex from Staphylococcus aureus

script: https://proteopedia.org/wiki/scripts/74/742625/Cv3/2.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?2ccede112780a94592edf96642f32d01 (always reloads)


optimal DNA target of the complex is determined by a Watson–Crick base pairing of a short ∼20-nt sequence within sgRNA (within the crRNA in wild-type)

script: https://proteopedia.org/wiki/scripts/74/742625/Cv3/4.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?e44061e874ac35d8806b45eaf9f9ebaf (always reloads)


few nucleotide long conserved motif recognized directly by Cas9 protein (protospacer adjacent motif, PAM)

script: https://proteopedia.org/wiki/scripts/74/742625/Cv3/10.spt

coords: same as optimal DNA target of the complex is determined by a Watson–Crick base pairing of a short ∼20-nt sequence within sgRNA (within the crRNA in wild-type) (always reloads)


few mismatches between guide sequence and target DNA can be tolerated

script: https://proteopedia.org/wiki/scripts/74/742625/Cv/44.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?3d79d333a058bb5bd2af9650e145ebe1 (always reloads)


When Cas9 is in the apo state, its PAM-interacting cleft is largely disordered

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/3.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?ce8514cc5aaf7818a31c1779fc0adf71 (always reloads)


Pre-target state of CAS9 with sgRNA

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/4.spt

coords: same as When Cas9 is in the apo state, its PAM-interacting cleft is largely disordered (always reloads)


CAS9 with sgRNA and tagret DNA

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/5.spt

coords: same as When Cas9 is in the apo state, its PAM-interacting cleft is largely disordered (always reloads)


Animation of these scenes

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/7.spt

coords: same as When Cas9 is in the apo state, its PAM-interacting cleft is largely disordered (always reloads)


Cas9-sgRNA-dsDNA complex

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/11.spt

coords: https://proteopedia.org/cgi-bin/getfrozenstructure?e9eee6ce3083b7b447d2efbbf956be6c (always reloads)


sgRNA-dsDNA without protein is shown

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/12.spt

coords: same as Cas9-sgRNA-dsDNA complex (always reloads)


Scissile phosphates

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/14.spt

coords: same as Cas9-sgRNA-dsDNA complex (always reloads)


Cas9 interacts with both separated DNA strands

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/15.spt

coords: same as Cas9-sgRNA-dsDNA complex (always reloads)


deactivated Cas9 (dCas9)

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/8.spt

coords: same as crRNA and tracrRNA can be joined end-to-end and transcribed as a single guide RNA (sgRNA) (always reloads)


mutating two key residues within its nuclease domains

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/9.spt

coords: same as crRNA and tracrRNA can be joined end-to-end and transcribed as a single guide RNA (sgRNA) (always reloads)


Domain organization of nuclease lobe of Cas9 from S. pyogenes

script: https://proteopedia.org/wiki/scripts/74/746096/Cv3/1.spt

coords: same as Initial view (always reloads)


Cas9-sgRNA-target DNA complex from Streptococcus pyogenes

script: https://proteopedia.org/wiki/scripts/74/742625/Cv/42.spt

coords: same as Cas9-sgRNA-target DNA complex from Streptococcus pyogenes (always reloads)


Cas9-sgRNA-target DNA complex from Streptococcus pyogenes

script: https://proteopedia.org/wiki/scripts/74/742625/Cv2/12.spt

coords: same as Cas9-sgRNA-target DNA complex from Streptococcus pyogenes (always reloads)


CAS9 with sgRNA and tagret DNA

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/5.spt

coords: same as When Cas9 is in the apo state, its PAM-interacting cleft is largely disordered (always reloads)


Cas9-sgRNA-dsDNA complex

script: https://proteopedia.org/wiki/scripts/74/742625/Cv4/11.spt

coords: same as Cas9-sgRNA-dsDNA complex (always reloads)

Jmol commands: buttons etc

Summary

Total of green links: 25

Total of Jmol buttons etc: 0

coordinates used

  • /cgi-bin/getfrozenstructure?14e7e6b27144899555581f95781095d3
  • /cgi-bin/getfrozenstructure?390674a1fe8f149d2a471a66257db804
  • /cgi-bin/getfrozenstructure?24390165f6e745806f0ed99c67de2118
  • /cgi-bin/getfrozenstructure?9dbb58242e693852cd408648accf59ea
  • /cgi-bin/getfrozenstructure?0a7d3ac27b1d671cca434c9eff24c49c
  • /cgi-bin/getfrozenstructure?2ccede112780a94592edf96642f32d01
  • /cgi-bin/getfrozenstructure?e44061e874ac35d8806b45eaf9f9ebaf
  • /cgi-bin/getfrozenstructure?3d79d333a058bb5bd2af9650e145ebe1
  • /cgi-bin/getfrozenstructure?ce8514cc5aaf7818a31c1779fc0adf71
  • /cgi-bin/getfrozenstructure?e9eee6ce3083b7b447d2efbbf956be6c

Proteopedia Page Contributors and Editors (what is this?)

Karsten Theis

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