Structure of PDB 8t78 Chain A

Receptor sequence

>8t78A (length=863) Species: 1314 (Streptococcus pyogenes)

KKYSIGLDIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALL
FDSGETAERTRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLE
ESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLR
LIYLALAHMIKFRGHFLIEGDLNPDNSDDLFLAAKNLSDAILLSDILRVN
TEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFFDQSKNGY
AGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQRTFDNGS
IPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVGPLARGN
SRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKGTYHDLLKI
IKDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQ
LKRRRYTGWGRDSLHEHIANLAGSPAIKKGILQTVKVVDELVKVMGRHKP
ENIVIELVETRQITKHVAQILDSRMVKVITLKSKLVSDFRKDFQFYKVRE
INNYHHAHDAYLNAVVGTALIKKIRDFATVRKVLSMPQVNIVKKTEVQTG
GFSKESIRPKRNSDKLIARKKDWDPKKYGGFLWPTVAYSVLVVAKVEKGK
SKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSL
FELENGRKRMLASAKQLQKGNELALPSKYVNFLYLASHYEKLKGSPEDNE
QKQLFVEQHKHYLDEIIEQISEFSKRVILADANLDKVLSAYNKHRDKPIR
EQAENIIHLFTLTRLGAPRAFKYFDTTIDPKQYRSTKEVLDATLIHQSIT
GLYETRIDLSQLG

3D structure

• PDB: 8t78 Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9
• Chain: A
• Resolution: 3.02 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	A	K30 K33 L35 R40 I43 K44 N46 E57 T58 A59 R61 T62 R63 R66 R69 R70 R71 Y72 R74 R75 K76 N77 L101 S104 F105 K111 R115 H116 I122 E125 H129 T134 I135 H160 K163 F164 R165 G166 Y325 H328 H329 L332 K336 R340 F351 F352 Y359 A360 I363 Q402 R403 T404 F405 N407 G408 F446 R447 I448 Y450 P454 L455 A456 R457 N459 S460 F462 W464 R467 T472 I473 P475 S719 H721 P731 K735 K742 Y981 P1090 Q1091 V1100 T1102 G1103 G1104 F1105 I1110 P1112 R1122 K1123 K1124 W1126 K1130 Y1131 M1169 E1225 A1227 Q1272 H1349 Q1350 S1351 Y1356	K28 K31 L33 R38 I41 K42 N44 E55 T56 A57 R59 T60 R61 R64 R67 R68 R69 Y70 R72 R73 K74 N75 L99 S102 F103 K109 R113 H114 I120 E123 H127 T132 I133 H158 K161 F162 R163 G164 Y216 H219 H220 L223 K227 R231 F242 F243 Y250 A251 I254 Q293 R294 T295 F296 N298 G299 F337 R338 I339 Y341 P345 L346 A347 R348 N350 S351 F353 W355 R358 T363 I364 P366 S463 H465 P475 K479 K486 Y554 P587 Q588 V597 T599 G600 G601 F602 I607 P609 R619 K620 K621 W623 K627 Y628 M666 E722 A724 Q769 H846 Q847 S848 Y853
BS02	dna	A	Y450 I492 M495 E627 R655 K1107 E1108 S1109 R1111 K1340	Y341 I383 M386 E427 R455 K604 E605 S606 R608 K837
BS03	dna	A	R1114 K1118 W1136 S1216	R611 K615 W633 S713

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:8t78, PDBe:8t78, PDBj:8t78
• PDBsum: 8t78
• PubMed: 38688943
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)