Structure of PDB 8kam Chain B

Receptor sequence

>8kamB (length=1326) Species: 301447 (Streptococcus pyogenes serotype M1)

KYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALLF
DSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLEE
SFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLRL
IYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPINA
SGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPNFK
SNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAILLS
DILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFFD
QSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQR
TFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVG
PLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKNLP
NEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDLLF
KTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKIIKD
KDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQLKR
RRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDSLT
FKEDIQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMGR
HKPENIVIEMARNSRERMKRIEEGIKELGSQILKEHPVENTQLQNEKLYL
YYLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTRSDKN
RGKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLSELDK
AGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLV
SDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFVYGDG
KATAKYFFYSNIMNFFKTEIKRPLIETNGETGEIVWDKGRDFATVRKVLS
MPQVNIVKKTEVQTGGFSKESILPKRNSDKLIARKKDWDPKKYGGFDSPT
VAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYK
EVKKDLIIKLPKYSLFELENGRKRMLASAGELQKGNELALPSKYVNFLYL
ASHYEKLKGSPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVILADANLD
KVLSAYNKHRDKPIREQAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTS
TKEVLDATLIHQSITGLYETRIDLSQ

3D structure

• PDB: 8kam Trans-nuclease activity of Cas9 activated by DNA or RNA target binding.
• Chain: B
• Resolution: 3.91 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 R40 K44 K45 N46 G56 E57 T58 A59 T62 R63 K65 R66 R69 R70 R71 R74 N77 L101 S104 F105 L106 V107 K111 R115 I122 E125 V126 H129 I135 F164 R165 G166 Y325 H328 H329 L332 K336 F351 A360 I363 Q402 R403 T404 F405 N407 G408 R447 I448 Y450 P454 L455 R457 N459 S460 F462 W464 R467 I473 P475 H721 K735 Q739 K742 Q894 Y981 M1089 P1090 Q1091 K1097 T1098 E1099 V1100 T1102 G1104 F1105 I1110 P1112 R1122 K1123 K1124 Y1131 F1134 M1169 Q1272 R1279 S1351 I1352 Y1356 E1357 T1358	K27 R37 K41 K42 N43 G53 E54 T55 A56 T59 R60 K62 R63 R66 R67 R68 R71 N74 L98 S101 F102 L103 V104 K108 R112 I119 E122 V123 H126 I132 F161 R162 G163 Y322 H325 H326 L329 K333 F348 A357 I360 Q399 R400 T401 F402 N404 G405 R444 I445 Y447 P451 L452 R454 N456 S457 F459 W461 R464 I470 P472 H718 K732 Q736 K739 Q881 Y968 M1051 P1052 Q1053 K1059 T1060 E1061 V1062 T1064 G1066 F1067 I1072 P1074 R1084 K1085 K1086 Y1093 F1096 M1131 Q1234 R1241 S1313 I1314 Y1318 E1319 T1320
BS02	dna	B	L169 Y450 F491 I492 M495 N497 R778 D898 N899 K902 R905 R925 Q926 K1107 E1108 S1109 K1334 S1338	L166 Y447 F488 I489 M492 N494 R765 D885 N886 K889 R892 R912 Q913 K1069 E1070 S1071 K1296 S1300
BS03	dna	B	S777 R1114 S1116 S1136 K1200 S1216 Q1221 R1333 R1335	S764 R1076 S1078 S1098 K1162 S1178 Q1183 R1295 R1297

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:8kam, PDBe:8kam, PDBj:8kam
• PDBsum: 8kam
• PubMed: 38811761
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)