2023-09-06 REL RCSB RCSB RCSB 2020-08-27 2021-09-22 2021-09-22 2023-09-06 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) United States SpCas9 delta4CE Ternary Complex Sham A Laughlin TG Savage DF CRISPR-Cas, DNA-binding, engineered, RNA BINDING PROTEIN Shams A Higgins SA Fellmann C Laughlin TG Oakes BL Lew R Kim S Lukarska M Arnold M Staahl BT Doudna JA Savage DF Comprehensive deletion landscape of CRISPR-Cas9 identifies minimal RNA-guided DNA-binding modules. Nat Commun UK 12 5664 5664 2021 34580310 doi:10.1038/s41467-021-25992-8 2041-1723 SpCas9 delta4CE Ternary Complex SpCas9 delta4CE Ternary Complex 0 1 2 3 4 Streptococcus pyogenes 0.17665 SpCas9 delta4CE Streptococcus pyogenes Escherichia coli LEVO MKSSHHHHHHENLYFQSNATPKKKRKVGGSPKKKRKVGGSPKKKRKVGGSPKKKRKVGIHGVPAATMDKKYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALLFDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLEESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLRLIYLALAHMIKFRGHFLIEGDLNPDNSTSDAILLSDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFFDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQRTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVGPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKNLTSQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMGRHKPENIVIEMARENQTTQKGQKNSRERMKRIEEGIKELASDNLTKAERGGLSELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLVSDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFVASTVRKVLSMPQVNIVKKTEVQTGGFSKESILPKRNSDKLIARKKDWDPKKYGGFDSPTVAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSLFELENGRKRMLASAGELQKGNELALPSKYVNFLYLASHYEKLKGSPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVILADANLDKVLSAYNKHRDKPIREQAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLDATLIHQSITGLYETRIDLSQLGGDGSPKKKRKVEDPKKKRKVDTQSPKGS sgRNA Escherichia coli UCAGCCACAGCUGGGCCUGGGUUUUAGAGCUAGAAAUAGCAAGUUAAAAUAAGGCUAGUCCGUUAUCAACUUGAAAAAGUGGCACCGAGUCGGUGCUUUU Target-strand Escherichia coli CTCACCTTCCTACGGTAGTCGGTGTCGACCCGGACCACCCGACAGTTTTAACTCG DNA Non-target strand Escherichia coli GAGTGGAAGGATGCCATCAGCCACAGCTGGGCCTGGTGGGCTGTCAAAATTGAGC DNA singleParticle particle 0.0053 8.0 30.0 NH2C(CH2OH)3HCl Tris-HCl 150.0 KCl Potassium Chloride 5.0 MgCl2 Magnesium chloride 5.0 C4H10O2S2 Dithiothreitol 0.1 C3H8O3 Glycerol Quantifoil R1.2/1.3 COPPER 200 CARBON HOLEY CARBON CONTINUOUS GLOW DISCHARGE OTHER ETHANE 100 289 FEI VITROBOT MARK IV
10 s incubation, blot 5 seconds.
FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 70.0 2.7 1.5 3.8000000000000003 45000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 (6k x 4k) 1 3400 60.0
collected using image-shift for a regular 3x3 array of holes per stage movement
 1 288416
ab initio via stochastic gradient descent as implemented in RELION
 1 C1 BACK PROJECTION 6.2 FSC 0.143 CUT-OFF RELION 3.1b 167245 MAXIMUM LIKELIHOOD RELION 3.1b MAXIMUM LIKELIHOOD RELION 3.1b emd_22518.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z -0.09108114 0.17871282 0.0005681342 0.0074739596 1.8 1.8 1.8 0.031 AUTHOR SpCas9 delta4CE Ternary Complex 5Y36 RIGID BODY FIT CC REAL 395.0 emd_22518_msk_1.map emd_22518_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z -0.029656565 0.1110793 -0.00018110535 0.005996458 1.8 1.8 1.8 AUTHOR emd_22518_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z -0.06673173 0.23184222 -0.0003917858 0.012230464 1.8 1.8 1.8 AUTHOR emd_22518_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z 0.0 32.914284000000002 10.078156999999999 7.52896 1.8 1.8 1.8 AUTHOR emd_22518_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z -0.032382403 0.115546115 -0.00017614628 0.0061954064 1.8 1.8 1.8 AUTHOR emd_22518_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 230.4 230.4 230.4 90.0 90.0 90.0 X Y Z -0.033401504 0.11417829 -0.00016867588 0.0061836606 1.8 1.8 1.8 AUTHOR