Structure of PDB 8t6x Chain A

Receptor sequence

>8t6xA (length=1278) Species: 1314 (Streptococcus pyogenes)

KKYSIGLDIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALL
FDSGETAERTRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLE
ESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLR
LIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVDAKAILSARLSKS
RRLENLIAQLPGEKKNGLFGNLIALSLDDDLDNLLFLAAKNLSDAILLSD
ILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFFDQ
SKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQRT
FDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVGP
LARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKNLPN
EKVLPKHSLLYEYFTVYNELTKVKYFLSGEQKKAIVDLLFKTNRKVTVKQ
LKEDYFKKIISGVEDRFNASLGTYHDLLKIIKDKDFLDNEENEDILEDIV
LTLTLFEDREMIEERLKTYAHLFDDKVMKQLKRRRYTGWGRLSRKLINGI
RDKQSGKTILDFLKSDGFANRNFMQLIHDDSLTFKEDIQKAQDSLHEHIA
NLAGSPAIKKGILQTVKVVDELVKVMGRHKPENIVIEMARENQTTQKGQK
NSRERMKRIEEGIKELGSQILKEHPVENTQLQNEKLYLYYLQNGRDMYVD
QELDINRLSDYDVDHIVPQSFLKDDSIDNKVLTRSDKNRGKSDNVPSEEV
VKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLSELDKAGFIKRQLVETR
QITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLVSDFRKDFQFYKV
REINNYHHAHDAYLNAVVGTALIKKYPKLESEFVYGDYKVIGKATAKYFF
YSNIMNFFKTEITLANGEIRKRPLIETNGETGEIVWDKGRDFATVRKVLS
MPQVNIVKKTEVQTGGFSKESIRPKRNSDKLIARKKDWDPKKYGGFLWPT
VAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYK
EVKKDLIIKLPKYSLFELENGRKRMLASAKQLQKGNELALPSKYVNFLYL
ASHYEKLKGSPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVILADANLD
KVLSAYNKHRDKPIREQAENIIHLFTLTRLGAPRAFKYFDTTIDPKQYRS
TKEVLDATLIHQSITGLYETRIDLSQLG

3D structure

• PDB: 8t6x Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9
• Chain: A
• Resolution: 3.08 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	A	K30 L35 R40 I43 K44 N46 G56 E57 T58 A59 R61 T62 R63 K65 R66 R69 R70 R71 R74 R75 K76 N77 L101 S104 F105 K111 R115 H116 I122 H129 T134 I135 H160 K163 F164 R165 G166 Y325 H328 H329 K336 R340 F351 F352 Y359 I363 Q402 R403 T404 F405 N407 G408 F446 R447 I448 Y450 G453 P454 L455 A456 R457 N459 S460 F462 W464 T472 I473 P475 K500 Y515 T519 N588 R661 S730 P731 K734 K735 K742 K749 R753 S777 E779 R780 N803 D849 D850 S851 I852 K918 R919 M1089 P1090 V1100 T1102 G1103 G1104 F1105 I1110 P1112 K1113 R1122 K1123 K1124 K1130 Y1131 E1225 A1227 Q1272 H1349 Q1350 S1351 Y1356 T1358	K28 L33 R38 I41 K42 N44 G54 E55 T56 A57 R59 T60 R61 K63 R64 R67 R68 R69 R72 R73 K74 N75 L99 S102 F103 K109 R113 H114 I120 H127 T132 I133 H158 K161 F162 R163 G164 Y271 H274 H275 K282 R286 F297 F298 Y305 I309 Q348 R349 T350 F351 N353 G354 F392 R393 I394 Y396 G399 P400 L401 A402 R403 N405 S406 F408 W410 T418 I419 P421 K446 Y461 T465 N518 R591 S655 P656 K659 K660 K667 K674 R678 S702 E704 R705 N728 D774 D775 S776 I777 K843 R844 M1001 P1002 V1012 T1014 G1015 G1016 F1017 I1022 P1024 K1025 R1034 K1035 K1036 K1042 Y1043 E1137 A1139 Q1184 H1261 Q1262 S1263 Y1268 T1270
BS02	dna	A	Y450 M495 T496 N497 K526 G582 N588 T657 W659 R661 N692 M694 Q695 R765 E766 N767 Q768 T770 G773 Q774 S777 K810 S834 D837 V838 D839 S845 N863 R864 K866 D868 R925 K929 Y1013 V1015 A1032 K1107 E1108 S1109 R1111 W1136	Y396 M441 T442 N443 K472 G512 N518 T587 W589 R591 N622 M624 Q625 R690 E691 N692 Q693 T695 G698 Q699 S702 K735 S759 D762 V763 D764 S770 N788 R789 K791 D793 R850 K854 Y938 V940 A944 K1019 E1020 S1021 R1023 W1048
BS03	dna	A	D10 T13 N14 S15 G915 F916 R976 R1114 K1118 L1135 W1136 S1216 Q1221 R1322 R1337	D8 T11 N12 S13 G840 F841 R901 R1026 K1030 L1047 W1048 S1128 Q1133 R1234 R1249
BS04	MG	A	D10 H983	D8 H908
BS05	MG	A	D839 N863	D764 N788

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• 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:8t6x, PDBe:8t6x, PDBj:8t6x
• PDBsum: 8t6x
• PubMed: 38688943
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)