Structure of PDB 7z4h Chain B

Receptor sequence

>7z4hB (length=1334) Species: 1314 (Streptococcus pyogenes)

DKKYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGAL
LFDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRL
EESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADL
RLIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPI
NASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPN
FKSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAIL
LSDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIF
FDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRK
QRTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYY
VGPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKN
LPNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDL
LFKTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKII
KDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQL
KRRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDS
LTFKEDIQKAQVSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMGRHKP
ENIVIEMARENNSRERMKRIEEGIKELGSQILKEHPVENTQLQNEKLYLY
YLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTRSDKNR
GKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLSELDKA
GFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLKSKLVS
DFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFVYGDYV
RKMIAAKYFFYSNIMNFFKTEITLANGEIRKRPLIETNGETGEIVWDKGR
DFATVRKVLSMPQVNIVKKTEVQTGGFSKESILPKRNSDKLIARKKDWDP
KKYGGFDSPTVAYSVLVVAKVEKGKSKKLKSVKELLGITIMERSSFEKNP
IDFLEAKGYKEVKKDLIIKLPKYSLFELENGRKRMLASAGELQKGNELAL
PSKYVNFLYLASHYESPEDNEQKQLFVEQHKHYLDEIIEQISEFSKRVIL
ADANLDKVLSAYNKHRDKPIREQAENIIHLFTLTNLGAPAAFKYFDTTID
RKRYTSTKEVLDATLIHQSITGLYETRIDLSQLG

3D structure

• PDB: 7z4h R-loop formation and conformational activation mechanisms of Cas9.
• Chain: B
• Resolution: 3.49 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 K33 L35 R40 K44 N46 G56 E57 T58 A59 T62 R63 K65 R66 R69 R70 R71 R74 K76 N77 R78 Y81 L101 S104 F105 R115 H116 I122 E125 H129 T134 I135 H160 K163 F164 R165 G166 H167 Y325 H328 H329 L332 K336 R340 F351 F352 Y359 I363 K401 Q402 R403 T404 F405 N407 G408 I448 Y450 G453 P454 L455 A456 R457 N459 S460 F462 W464 T472 I473 P475 H721 K735 L738 Q739 K742 R753 Y981 P1090 Q1091 K1097 E1099 V1100 T1102 G1103 G1104 F1105 I1110 R1122 K1123 K1124 K1130 Y1131 F1134 M1169 E1225 L1226 A1227 Q1272 H1349 Q1350 S1351 Y1356 T1358	K29 K32 L34 R39 K43 N45 G55 E56 T57 A58 T61 R62 K64 R65 R68 R69 R70 R73 K75 N76 R77 Y80 L100 S103 F104 R114 H115 I121 E124 H128 T133 I134 H159 K162 F163 R164 G165 H166 Y324 H327 H328 L331 K335 R339 F350 F351 Y358 I362 K400 Q401 R402 T403 F404 N406 G407 I447 Y449 G452 P453 L454 A455 R456 N458 S459 F461 W463 T471 I472 P474 H715 K729 L732 Q733 K736 R747 Y967 P1062 Q1063 K1069 E1071 V1072 T1074 G1075 G1076 F1077 I1082 R1094 K1095 K1096 K1102 Y1103 F1106 M1141 E1197 L1198 A1199 Q1240 H1317 Q1318 S1319 Y1324 T1326
BS02	dna	B	L169 Y450 F491 M495 T496 N497 K526 G582 E584 W659 R661 Q695 A728 Q926 K1107 E1108 S1109	L168 Y449 F490 M494 T495 N496 K525 G581 E583 W658 R660 Q694 A722 Q912 K1079 E1080 S1081
BS03	dna	B	K510 Y515 R661 M694 S1006 E1007 G1011 D1012 S1116 K1118 S1136 S1216 E1219 Q1221 A1320 R1333 R1335	K509 Y514 R660 M693 S992 E993 G997 D998 S1088 K1090 S1108 S1188 E1191 Q1193 A1288 R1301 R1303

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:7z4h, PDBe:7z4h, PDBj:7z4h
• PDBsum: 7z4h
• PubMed: 36002571
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)