Structure of PDB 6aeb Chain B

Receptor sequence

>6aebB (length=1322) Species: 1314 (Streptococcus pyogenes)

KYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALLF
DSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLEE
SFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLRL
IYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPINA
SGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPNFK
SNFDLAEDTKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAILLS
DILRVNTEITKAPLSASMIKLYDEHHQDLTLLKALVRQQLPEKYKEIFFD
QSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQR
TFDNGIIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVG
PLARGNSRFAWMTRKSEETITPWNFEKVVDKGASAQSFIERMTNFDKNLP
NEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGDQKKAIVDLLF
KTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKIIKD
KDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQLKR
RRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFIQLIHDDSLT
FKEDIQKAQSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMGRHKPENI
VIEMARSRERMKRIEEGIKELGSQILKEHPVENTQLQNEKLYLYYLQNGR
DMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTRSDKNRGKSDNV
PSEEVVKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLSELDKAGFIKRQ
LVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLVSDFRKDF
QFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFVYGKATAKYFFY
SNIMNFFKTEITLANGEIRKRPLIETNGETGEIVWDKGRDFATVRKVLSM
PQVNIVKKTEVQTGGFSKESILPKRNSDKLIARKKDWDPKKYGGFDSPTV
AYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKE
VKKDLIIKLPKYSLFELENGRKRMLASAGVLQKGNELALPSKYVNFLYLA
SHYEPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVILADANLDKVLSAY
NKHRDKPIREQAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLD
ATLIHQSITGLYETRIDLSQLG

3D structure

• PDB: 6aeb Structural insights into a high fidelity variant of SpCas9.
• Chain: B
• Resolution: 3.004 Å

Enzymatic activity

• Enzyme Commision number: 3.1.-.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	B	K30 K31 K33 L35 I43 K44 N46 E57 T58 A59 T62 R63 K65 R66 R69 R70 R71 Y72 R74 R75 K76 N77 R78 Y81 L101 S104 F105 V107 K111 R115 H116 I122 V126 H129 I135 H160 K163 F164 R165 G166 Y325 H328 H329 K336 R340 F351 I363 K401 Q402 R403 T404 F405 N407 G408 F446 R447 I448 Y450 L455 A456 R457 N459 S460 F462 W464 R467 T472 I473 P475 K510 R661 H721 K735 Q739 K742 Q894 Y981 P1090 Q1091 K1097 E1099 V1100 T1102 G1103 G1104 F1105 I1110 L1111 P1112 K1113 R1122 K1123 K1124 K1130 Y1131 F1134 M1169 E1225 L1226 A1227 P1229 Q1272 H1349 Q1350 Y1356 E1357	K27 K28 K30 L32 I40 K41 N43 E54 T55 A56 T59 R60 K62 R63 R66 R67 R68 Y69 R71 R72 K73 N74 R75 Y78 L98 S101 F102 V104 K108 R112 H113 I119 V123 H126 I132 H157 K160 F161 R162 G163 Y322 H325 H326 K333 R337 F348 I360 K398 Q399 R400 T401 F402 N404 G405 F443 R444 I445 Y447 L452 A453 R454 N456 S457 F459 W461 R464 T469 I470 P472 K507 R658 H712 K726 Q730 K733 Q874 Y961 P1051 Q1052 K1058 E1060 V1061 T1063 G1064 G1065 F1066 I1071 L1072 P1073 K1074 R1083 K1084 K1085 K1091 Y1092 F1095 M1130 E1186 L1187 A1188 P1190 Q1228 H1305 Q1306 Y1312 E1313
BS02	dna	B	L169 F405 Y450 M495 N497 R895 K902 R905 R925 Q926 K1107 E1108 S1109 K1334	L166 F402 Y447 M492 N494 R875 K882 R885 R905 Q906 K1068 E1069 S1070 K1290
BS03	dna	B	R1114 S1116 D1135 A1215 S1216 A1320 R1335	R1075 S1077 D1096 A1176 S1177 A1276 R1291

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003723 RNA binding
• GO:0004519 endonuclease activity
• GO:0004520 DNA endonuclease activity
• GO:0004527 exonuclease activity
• GO:0008408 3'-5' exonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0043571 maintenance of CRISPR repeat elements
• GO:0051607 defense response to virus

External links

• PDB: RCSB:6aeb, PDBe:6aeb, PDBj:6aeb
• PDBsum: 6aeb
• PubMed: 30664728
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)