Structure of PDB 7v59 Chain B

Receptor sequence

>7v59B (length=1360) Species: 301447 (Streptococcus pyogenes serotype M1)

KKYSIGLDIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALL
FDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLE
ESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLR
LIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPIN
ASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPNF
KSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAILL
SDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFF
DQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQ
RTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYV
GPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKNL
PNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDLL
FKTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKIIK
DKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQLK
RRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDDSL
TFKEDIQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMG
RHKPENIVIEMARENQTTQKGQKNSRERMKRIEEGIKELGSQILKEHPVE
NTQLQNEKLYLYYLQNGRDMYVDQELDINRLSDYDVDHIVPQSFLKDDSI
DNKVLTRSDKNRGKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNLTK
AERGGLSELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLIRE
VKVITLKSKLVSDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKKYP
KLESEFVYGDYKVYDVRKMIAKSEQEIGKATAKYFFYSNIMNFFKTEITL
ANGEIRKRPLIETNGETGEIVWDKGRDFATVRKVLSMPQVNIVKKTEVQT
GGFSKESPKRNSDKLIARKKDWDPKKYGGFDSPTVAYSVLVVAKVEKGKS
KKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSLF
ELENGRKRMLASAGELQKGNELALPSKYVNFLYLASHYEKLKGSPEDNEQ
KQLFVEQHKHYLDEIIEQISEFSKRVILADANLDKVLSAYNKHRDKPIRE
QAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLDATLIHQSITG
LYETRIDLSQ

3D structure

• PDB: 7v59 Nonspecific interactions between SpCas9 and dsDNA sites located downstream of the PAM mediate facilitated diffusion to accelerate target search.
• Chain: B
• Resolution: 5.26 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	S29 K30 K31 F32 K33 I43 K44 N46 E57 T58 T62 R63 K65 R66 R69 R70 R71 Y72 R74 R75 K76 N77 Y81 S104 F105 L106 V107 R115 H116 I122 V126 H129 H160 K163 R165 G166 Y325 H328 H329 L332 K336 R340 F351 Y359 A360 I363 Q402 R403 T404 F405 N407 G408 I448 G453 P454 L455 A456 R457 N459 S460 F462 R467 Y515 T519 N522 N588 A589 F693 M694 K735 L738 E746 N803 Q807 P1090 Q1091 E1099 V1100 G1103 G1104 F1105 P1112 K1113 R1122 K1123 K1124 Y1131 M1169 A1227 R1279 H1349 Q1350 S1351 I1352 G1354 Y1356	S27 K28 K29 F30 K31 I41 K42 N44 E55 T56 T60 R61 K63 R64 R67 R68 R69 Y70 R72 R73 K74 N75 Y79 S102 F103 L104 V105 R113 H114 I120 V124 H127 H158 K161 R163 G164 Y323 H326 H327 L330 K334 R338 F349 Y357 A358 I361 Q400 R401 T402 F403 N405 G406 I446 G451 P452 L453 A454 R455 N457 S458 F460 R465 Y513 T517 N520 N586 A587 F691 M692 K733 L736 E744 N801 Q805 P1088 Q1089 E1097 V1098 G1101 G1102 F1103 P1108 K1109 R1118 K1119 K1120 Y1127 M1165 A1223 R1275 H1345 Q1346 S1347 I1348 G1350 Y1352
BS02	dna	B	Y450 M495 T496 N497 S581 G582 E584 N588 W659 R661 N692 S777 V1015 K1107 E1108 S1109 T1337 K1340	Y448 M493 T494 N495 S579 G580 E582 N586 W657 R659 N690 S775 V1013 K1105 E1106 S1107 T1333 K1336
BS03	dna	B	L911 K913 G915 F916 A1053 K1118 S1136 Y1242 E1243 R1333 R1335	L909 K911 G913 F914 A1051 K1114 S1132 Y1238 E1239 R1329 R1331

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:7v59, PDBe:7v59, PDBj:7v59
• PDBsum: 7v59
• PubMed: 34703564
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)