Structure of PDB 8t79 Chain A

Receptor sequence

>8t79A (length=1146) Species: 1314 (Streptococcus pyogenes)

KKYSIGLDIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGALL
FDSGETAERTRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHRLE
ESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKADLR
LIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENPIN
ASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTPNF
KSNFDLAEDAKLQLSKDTYDDDLDNLLAQIDLFLAAKNLSDAILLSDILR
VNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEIFFDQSKN
GYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLRKQRTFDN
GSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPYYVGPLAR
GNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDKNLPNEKV
LPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVDLLFKTNR
KVTVKQLKEDYFKKSLGTYHDLLKIIKDKDFLDNEENEDILEDIVLTLTL
FEDREMIEERLKTYAHLFDDKVMKQLKRRRYTGWGRLSRKLINGIRDKQS
GKTILDFLKSDGFANRNFMQLIHDDSLTFKEDIQKAQDSLHEHIANLAGS
PAIKKGILQTVKVVDELVKVMGRHKPENIVIEMAREKRQLVETRQITKHV
AQILDSRMNTKYDENDKLIREVKVITLKSKLVSDFRKDFQFYKVREINNY
HHAHDAYLNAVVGTALIKKYPKLESEFVYGDYKVIMNFFKPLIETNGETG
EIVWDKGRDFATVRKVLSMPQVNIVKKTEVQTGGFSKESIRPKRNSDKLI
ARKKDWDPKKYGGFLWPTVAYSVLVVAKVEKGKSKKLKSVKELLGITIME
RSSFEKNPIDFLEAKGYKEVKKDLIIKLPKYSLFELENGRKRMLASAKQL
QKGNELALPSKYVNFLYLASHYEKLKGSPEDNEQKQLFVEQHKHYLDEII
EQISEFSKRVILADANLDKVLSAYNKHRDKPIREQAENIIHLFTLTRLGA
PRAFKYFDTTIDPKQYRSTKEVLDATLIHQSITGLYETRIDLSQLG

3D structure

• PDB: 8t79 Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9.
• Chain: A
• Resolution: 3.04 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 G56 E57 T58 A59 R61 T62 R63 K65 R66 R69 R70 R71 R74 R75 K76 N77 R78 L101 S104 F105 K111 R115 H116 I122 E125 H129 T134 I135 H160 K163 F164 R165 G166 Y325 H328 H329 K336 R340 F351 F352 Y359 I363 Q402 R403 T404 F405 N407 G408 F446 R447 I448 Y450 P454 L455 A456 R457 N459 S460 F462 W464 T472 I473 P475 K735 K742 R753 Y981 M1089 P1090 Q1091 E1099 V1100 T1102 G1103 G1104 F1105 I1110 P1112 R1122 K1123 K1124 Y1131 E1225 A1227 Q1272 H1349 Q1350 S1351 Y1356	K28 K31 L33 R38 I41 K42 N44 G54 E55 T56 A57 R59 T60 R61 K63 R64 R67 R68 R69 R72 R73 K74 N75 R76 L99 S102 F103 K109 R113 H114 I120 E123 H127 T132 I133 H158 K161 F162 R163 G164 Y318 H321 H322 K329 R333 F344 F345 Y352 I356 Q395 R396 T397 F398 N400 G401 F439 R440 I441 Y443 P447 L448 A449 R450 N452 S453 F455 W457 T465 I466 P468 K705 K712 R723 Y800 M869 P870 Q871 E879 V880 T882 G883 G884 F885 I890 P892 R902 K903 K904 Y911 E1005 A1007 Q1052 H1129 Q1130 S1131 Y1136
BS02	dna	A	Y450 M495 T496 N497 K1107 S1109 R1111	Y443 M488 T489 N490 K887 S889 R891
BS03	dna	A	W1136 S1216 Q1219 R1337	W916 S996 Q999 R1117

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:8t79, PDBe:8t79, PDBj:8t79
• PDBsum: 8t79
• PubMed: 38688943
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)