2024-03-06 REL RCSB RCSB RCSB 2020-02-03 2020-07-29 2020-07-29 2024-03-06 National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI) RM1HG009490 United States Structure of the SpCas9 DNA adenine base editor - ABE8e Knott GJ Lapinaite A Base editor, ABE, Cas9, CRISPR, DNA BINDING PROTEIN-DNA-RNA complex Lapinaite A Knott GJ Palumbo CM Lin-Shiao E Richter MF Zhao KT Beal PA Liu DR Doudna JA DNA capture by a CRISPR-Cas9-guided adenine base editor. Science US 369 566 571 2020 32732424 doi:10.1126/science.abb1390 1095-9203 0038 SCIEAS 6vpc FULLOVERLAP CRISPR-Cas9 ABE8e in a substrate-bound state CRISPR-Cas9 ABE8e in a substrate-bound state 0 1 2 3 4 5
ABE8e in a substrate-bound state where the deaminase (TadA-8e) engages DNA exposed within the CRISPR-Cas9 R-loop complex.
Streptococcus pyogenes Cas9 (SpCas9) single-guide RNA (sgRNA) Streptococcus pyogenes 0.026357629 1 GGUUCCACUUUCUUAGACUGAGUUUUAGAGCUAGAAAUAGCAAGUUAAAAUAAGGCUAGUCCGUUAUCAACUUGAAAAAG UG CRISPR-associated endonuclease Cas9 Streptococcus pyogenes 0.157870984 1 Escherichia coli LEVO KYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALLFDSGETAEATRLKRTARRRYTRRKNRICYLQ EIFSNEMAKVDDSFFHRLEESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLRLIYLALAHMIK FRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPINASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIA LSLGLTPNFKSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAILLSDILRVNTEITKAPLSASMIK RYDEHHQDLTLLKALVRQQLPEKYKEIFFDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQR TFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVGPLARGNSRFAWMTRKSEETITPWNFEEVVD KGASAQSFIERMTNFDKNLPNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDLLFKTNRKVTVKQ LKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKIIKDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLF DDKVMKQLKRRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDSLTFKEDIQKAQVSGQGDSLHEH IANLAGSPAIKKGILQTVKVVDELVKVMGRHKPENIVIEMARENQTTQKGQKNSRERMKRIEEGIKELGSQILKEHPVEN TQLQNEKLYLYYLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTRSDKNRGKSDNVPSEEVVKKMKNYW RQLLNAKLITQRKFDNLTKAERGGLSELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLV SDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFVYGDYKVYDVRKMIAKSEQEIGKATAKYFFYSNIM NFFKTEITLANGEIRKRPLIETNGETGEIVWDKGRDFATVRKVLSMPQVNIVKKTEVQTGGFSKESILPKRNSDKLIARK KDWDPKKYGGFDSPTVAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSL FELENGRKRMLASAGELQKGNELALPSKYVNFLYLASHYEKLKGSPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVILA DANLDKVLSAYNKHRDKPIREQAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLDATLIHQSITGLYETRIDLS Q A0A4U7H5M9 3.1.-.- DNA target strand (TS) synthetic construct 0.015390881999999998 1 (DC)(DT)(DA)(DA)(DT)(DC)(DG)(DC)(DC)(DC)(DT)(DC)(DA)(DG)(DT)(DC)(DT)(DA)(DA)(DG) (DA)(DA)(DA)(DG)(DT)(DG)(DG)(DA)(DA)(DC)(DA)(DC)(DG)(DG)(DT)(DC)(DG)(DG)(DA)(DG) (DC)(DC)(DA)(DC)(DC)(DG)(DA)(DT)(DC)(DG) DNA DNA non-target strand (NTS) synthetic construct 0.015436831 1 (DC)(DG)(DA)(DT)(DC)(DG)(DG)(DT)(DG)(DG)(DC)(DT)(DC)(DC)(DG)(DA)(DC)(DC)(DG)(DT) (DG)(DT)(DT)(DC)(DC)(8AZ)(DC)(DT)(DT)(DT)(DC)(DT)(DT)(DA)(DG)(DA)(DC)(DT)(DG) (DA)(DG)(DG)(DG)(DC)(DG)(DA)(DT)(DT)(DA)(DG) DNA t-RNA adenine deaminase A v8e (TadA-8e) Escherichia coli 0.024657886999999996 2 Escherichia coli LEVO MGSSHHHHHHMKRTADGSEFESPKKKRKVSEVEFSHEYWMRHALTLAKRARDEREVPVGAVLVLNNRVIGEGWNRAIGLH DPTAHAEIMALRQGGLVMQNYRLIDATLYVTFEPCVMCAGAMIHSRIGRVVFGVRNSKRGAAGSLMNVLNYPGMNHRVEI TEGILADECAALLCDFYRMPRQVFNAQKKAQSSINSGGSSGGSSGSETPGTSESATPESSGGSSGGS MAGNESIUM ION 2.4305e-05 3 MG ZINC ION 6.5409e-05 2 ZN singleParticle particle 1 7.5
20 mM Tris-HCL (pH 7.5) 200 mM KCl 1 mM DTT 0.25% (v/v) Glycerol
 C-flat-2/2 COPPER 400 GLOW DISCHARGE ETHANE 100 281.15 FEI VITROBOT MARK IV
The grids were rapidly plunged into liquid ethane using a FEI Vitrobot MarkIV maintained at 8C and 100% humidity, after being blotted for 4.5s with blot force 8..
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 NITROGEN GATAN K3 (6k x 4k) 1 5022 48.0 1 4UN3 1 C1 EXACT BACK PROJECTION 3.2 FSC 0.143 CUT-OFF RELION 3.0 180927 ANGULAR RECONSTITUTION cryoSPARC 2.11.0 ANGULAR RECONSTITUTION RELION 3.0 180927.0 emd_21308.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 240.64 240.64 240.64 90.0 90.0 90.0 X Y Z -0.07627928 0.16077888 0.000020004078 0.003749351 0.94 0.94 0.94 0.008 AUTHOR 4UN3 PDB experimental model 4UN3 PDB experimental model 5F9R PDB experimental model 1Z3A PDB experimental model emd_21308_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 240.64 240.64 240.64 90.0 90.0 90.0 X Y Z -0.028676001 0.06130402 -0.000005199578 0.0024663112 0.94 0.94 0.94 AUTHOR emd_21308_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 240.64 240.64 240.64 90.0 90.0 90.0 X Y Z -0.030528601 0.061182566 -0.0000037433495 0.002450673 0.94 0.94 0.94 AUTHOR