Structure of PDB 5y36 Chain A

Receptor sequence

>5y36A (length=1368) Species: 301447 (Streptococcus pyogenes serotype M1)

MDKKYSIGLAIGTNSVGWAVITDEYKVPSKKFKVLGNTDRHSIKKNLIGA
LLFDSGETAEATRLKRTARRRYTRRKNRICYLQEIFSNEMAKVDDSFFHR
LEESFLVEEDKKHERHPIFGNIVDEVAYHEKYPTIYHLRKKLVDSTDKAD
LRLIYLALAHMIKFRGHFLIEGDLNPDNSDVDKLFIQLVQTYNQLFEENP
INASGVDAKAILSARLSKSRRLENLIAQLPGEKKNGLFGNLIALSLGLTP
NFKSNFDLAEDAKLQLSKDTYDDDLDNLLAQIGDQYADLFLAAKNLSDAI
LLSDILRVNTEITKAPLSASMIKRYDEHHQDLTLLKALVRQQLPEKYKEI
FFDQSKNGYAGYIDGGASQEEFYKFIKPILEKMDGTEELLVKLNREDLLR
KQRTFDNGSIPHQIHLGELHAILRRQEDFYPFLKDNREKIEKILTFRIPY
YVGPLARGNSRFAWMTRKSEETITPWNFEEVVDKGASAQSFIERMTNFDK
NLPNEKVLPKHSLLYEYFTVYNELTKVKYVTEGMRKPAFLSGEQKKAIVD
LLFKTNRKVTVKQLKEDYFKKIECFDSVEISGVEDRFNASLGTYHDLLKI
IKDKDFLDNEENEDILEDIVLTLTLFEDREMIEERLKTYAHLFDDKVMKQ
LKRRRYTGWGRLSRKLINGIRDKQSGKTILDFLKSDGFANRNFMQLIHDD
SLTFKEDIQKAQVSGQGDSLHEHIANLAGSPAIKKGILQTVKVVDELVKV
MGRHKPENIVIEMARENQTTQKGQKNSRERMKRIEEGIKELGSQILKEHP
VENTQLQNEKLYLYYLQNGRDMYVDQELDINRLSDYDVDAIVPQSFLKDD
SIDNKVLTRSDKNRGKSDNVPSEEVVKKMKNYWRQLLNAKLITQRKFDNL
TKAERGGLSELDKAGFIKRQLVETRQITKHVAQILDSRMNTKYDENDKLI
REVKVITLKSKLVSDFRKDFQFYKVREINNYHHAHDAYLNAVVGTALIKK
YPKLESEFVYGDYKVYDVRKMIAKSEQEIGKATAKYFFYSNIMNFFKTEI
TLANGEIRKRPLIETNGETGEIVWDKGRDFATVRKVLSMPQVNIVKKTEV
QTGGFSKESILPKRNSDKLIARKKDWDPKKYGGFDSPTVAYSVLVVAKVE
KGKSKKLKSVKELLGITIMERSSFEKNPIDFLEAKGYKEVKKDLIIKLPK
YSLFELENGRKRMLASAGELQKGNELALPSKYVNFLYLASHYEKLKGSPE
DNEQKQLFVEQHKHYLDEIIEQISEFSKRVILADANLDKVLSAYNKHRDK
PIREQAENIIHLFTLTNLGAPAAFKYFDTTIDRKRYTSTKEVLDATLIHQ
SITGLYETRIDLSQLGGD

3D structure

• PDB: 5y36 Structural insights into DNA cleavage activation of CRISPR-Cas9 system
• Chain: A
• Resolution: 5.2 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	S29 K30 R40 K44 K45 R63 R69 R70 Y72 R74 R75 K76 R78 Y81 F105 R115 V126 Y128 P133 T134 I135 L156 K163 F164 R165 G166 H167 Y325 K401 R403 T404 G408 R447 I448 Y450 A456 R457 N459 T472 I473 T474 N692 Q695 G729 K735 K772 K848 K1085 P1090 Q1091 V1100 T1102 G1103 G1104 F1105 E1108 K1130 Y1131 F1134 M1169 R1171 K1211 R1279 Y1356	S29 K30 R40 K44 K45 R63 R69 R70 Y72 R74 R75 K76 R78 Y81 F105 R115 V126 Y128 P133 T134 I135 L156 K163 F164 R165 G166 H167 Y325 K401 R403 T404 G408 R447 I448 Y450 A456 R457 N459 T472 I473 T474 N692 Q695 G729 K735 K772 K848 K1085 P1090 Q1091 V1100 T1102 G1103 G1104 F1105 E1108 K1130 Y1131 F1134 M1169 R1171 K1211 R1279 Y1356
BS02	dna	A	L64 R71 S267 Y450 N497 K500 K526 W659 Q774 K775 P843 Q844 K866 Y1010 K1107 S1109 D1135 K1334 R1335	L64 R71 S267 Y450 N497 K500 K526 W659 Q774 K775 P843 Q844 K866 Y1010 K1107 S1109 D1135 K1334 R1335
BS03	dna	A	G12 T13 N14 K789 L908 S909 L911 D912 K918 R919 Q920 L921 R967 K974 H982 H983 K1003 L1004 M1021 K1024 Y1036 F1037 S1040 N1041 N1044 R1114 N1115 S1116 H1311 T1314 A1322	G12 T13 N14 K789 L908 S909 L911 D912 K918 R919 Q920 L921 R967 K974 H982 H983 K1003 L1004 M1021 K1024 Y1036 F1037 S1040 N1041 N1044 R1114 N1115 S1116 H1311 T1314 A1322
BS04	MG	A	H982 H983 D986	H982 H983 D986
BS05	MG	A	D839 D861	D839 D861

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:5y36, PDBe:5y36, PDBj:5y36
• PDBsum: 5y36
• PubMed: 29123204
• UniProt: Q99ZW2|CAS9_STRP1 CRISPR-associated endonuclease Cas9/Csn1 (Gene Name=cas9)