Structure of PDB 7z4i Chain B

Receptor sequence

>7z4iB (length=1338) Species: 1314 (Streptococcus pyogenes)

DKKYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGAL
LFDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRL
EESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADL
RLIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPI
NASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPN
FKSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAIL
LSDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIF
FDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRK
QRTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYY
VGPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKN
LPNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDL
LFKTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKII
KDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQL
KRRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDS
LTFKEDIQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVM
GRHKPENIVIEMAREKNSRERMKRIEEGIKELGSQILKEHPVENTQLQNE
KLYLYYLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTR
SDKNRGKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLS
ELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLK
SKLVSDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFV
YGDYKVYDKATAKYFFYSNIMNFFKTEITIRKRPLIETNGETGEIVWDKG
RDFATVRKVLSMPQVNIVKKTEVQTGGFSKESILPKRNSDKLIARKKDWD
PKKYGGFDSPTVAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKN
PIDFLEAKGYKEVKKDLIIKLPKYSLFELENGRKRMLASAGELQKGNELA
LPSKYVNFLYLASHYEKLKGSPEDNEQKQLFVEQHKHYLDEIIEQISEFS
KRVILADANLDKVLSAYNKHRDKPIREQAENIIHLFTLTNLGAPAAFKYF
DTTIDRKRYTSTKEVLDATLIHQSITGLYETRIDLSQL

3D structure

• PDB: 7z4i R-loop formation and conformational activation mechanisms of Cas9.
• Chain: B
• Resolution: 3.12 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 L35 K44 N46 G56 E57 T58 A59 E60 T62 R63 K65 R66 R69 R70 R71 Y72 R74 R75 K76 N77 Y81 L101 S104 F105 K111 R115 H116 I122 H129 T134 I135 H160 K163 F164 R165 G166 H167 Y325 H328 H329 K336 R340 F351 F352 Y359 I363 Q402 R403 T404 F405 N407 G408 R447 I448 Y450 G453 P454 L455 A456 R457 N459 S460 F462 W464 R467 T472 I473 P475 F491 N588 H721 K735 Q739 K742 K749 R753 Y981 M1089 P1090 Q1091 K1097 E1099 V1100 T1102 G1103 G1104 F1105 I1110 P1112 K1113 R1122 K1123 K1124 W1126 Y1131 M1169 E1225 L1226 A1227 Q1272 H1349 Q1350 S1351 Y1356	K29 K30 L34 K43 N45 G55 E56 T57 A58 E59 T61 R62 K64 R65 R68 R69 R70 Y71 R73 R74 K75 N76 Y80 L100 S103 F104 K110 R114 H115 I121 H128 T133 I134 H159 K162 F163 R164 G165 H166 Y324 H327 H328 K335 R339 F350 F351 Y358 I362 Q401 R402 T403 F404 N406 G407 R446 I447 Y449 G452 P453 L454 A455 R456 N458 S459 F461 W463 R466 T471 I472 P474 F490 N587 H720 K734 Q738 K741 K748 R752 Y972 M1062 P1063 Q1064 K1070 E1072 V1073 T1075 G1076 G1077 F1078 I1083 P1085 K1086 R1095 K1096 K1097 W1099 Y1104 M1142 E1198 L1199 A1200 Q1245 H1322 Q1323 S1324 Y1329
BS02	dna	B	L169 Y450 F491 I492 M495 N497 E584 E627 R661 A728 R778 R895 K902 R905 R925 Q926 K1107 E1108 S1109	L168 Y449 F490 I491 M494 N496 E583 E626 R660 A727 R769 R886 K893 R896 R916 Q917 K1080 E1081 S1082
BS03	dna	B	S1116 S1136 K1200 A1215 S1216 E1219 Q1221 A1320 R1333 R1335	S1089 S1109 K1173 A1188 S1189 E1192 Q1194 A1293 R1306 R1308

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:7z4i, PDBe:7z4i, PDBj:7z4i
• PDBsum: 7z4i
• PubMed: 36002571
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)