Structure of PDB 7z4c Chain B

Receptor sequence

>7z4cB (length=1357) Species: 1314 (Streptococcus pyogenes)

DKKYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGAL
LFDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRL
EESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADL
RLIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPI
NASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPN
FKSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAIL
LSDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIF
FDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRK
QRTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYY
VGPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKN
LPNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDL
LFKTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKII
KDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQL
KRRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDS
LTFKEDIQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVM
GRHKPENIVIEMAREKNSRERMKRIEEGIKELGSQILKEHPVENTQLQNE
KLYLYYLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDDSIDNKVLTR
SDKNRGKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNLTKAERGGLS
ELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIREVKVITLK
SKLVSDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYPKLESEFV
YGDYKVYDVRKMIAKSEQEIGKATAKYFFYSNIMNFFKTEITLANGEIRK
RPLIETNGETGEIVWDKGRDFATVRKVLSMPQVNIVKKTEVQTGGFSKES
ILPKRNSDKLIARKKDWDPKKYGGFDSPTVAYSVLVVAKVEKGKSKKLKS
VKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSLFELENG
RKRMLASAGELQKGNELALPSKYVNFLYLASHYEKLKGSPEDNEQKQLFV
EQHKHYLDEIIEQISEFSKRVILADANLDKVLSAYNKHRDKPIREQAENI
IHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLDATLIHQSITGLYETR
IDLSQLG

3D structure

• PDB: 7z4c R-loop formation and conformational activation mechanisms of Cas9.
• Chain: B
• Resolution: 3.87 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	dna	B	K234 T657 K1107 E1108 S1109	K233 T656 K1098 E1099 S1100
BS02	dna	B	S217 T249 K263 R1114 S1136 S1216 E1219 Q1221 A1320 R1333 R1335	S216 T248 K262 R1105 S1127 S1207 E1210 Q1212 A1311 R1324 R1326
BS03	rna	B	K3 K30 K33 L35 K44 N46 E57 A59 T62 R63 K65 R66 R69 R70 R71 Y72 R74 K76 N77 L101 S104 F105 V107 R115 I122 E125 H129 T134 I135 H160 K163 F164 R165 G166 H167 Y325 H328 L332 K336 R340 F351 Y359 I363 Q402 R403 T404 F405 N407 G408 F446 I448 Y450 P454 L455 R457 N459 S460 F462 W464 T472 I473 P475 M495 N497 K500 G729 K735 Y981 M1089 P1090 E1099 V1100 T1102 G1103 G1104 F1105 I1110 R1122 K1123 K1124 Y1131 F1134 E1225 L1226 A1227 H1349 Q1350 S1351 Y1356	K2 K29 K32 L34 K43 N45 E56 A58 T61 R62 K64 R65 R68 R69 R70 Y71 R73 K75 N76 L100 S103 F104 V106 R114 I121 E124 H128 T133 I134 H159 K162 F163 R164 G165 H166 Y324 H327 L331 K335 R339 F350 Y358 I362 Q401 R402 T403 F404 N406 G407 F445 I447 Y449 P453 L454 R456 N458 S459 F461 W463 T471 I472 P474 M494 N496 K499 G728 K734 Y972 M1080 P1081 E1090 V1091 T1093 G1094 G1095 F1096 I1101 R1113 K1114 K1115 Y1122 F1125 E1216 L1217 A1218 H1340 Q1341 S1342 Y1347

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:7z4c, PDBe:7z4c, PDBj:7z4c
• PDBsum: 7z4c
• PubMed: 36002571
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)