Structure of PDB 7nac Chain w Binding Site BS02

Receptor Information
>7nac Chain w (length=672) Species: 1247190 (Saccharomyces cerevisiae BY4741) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MGKTQKKNSKGRLDRYYYLAKEKGYRARSSFKIIQINEKYGHFLEKSKVV
IDLCAAPGSWCQVASKLCPVNSLIIGVDIVPMKPMPNVITFQSDITTEDC
RSKLRGYMKTWKADTVLHDGAPNVGLGWVQDAFTQSQLTLQALKLAVENL
VVNGTFVTKIFRSKDYNKLIWVFQQLFEKVEATKPPASRNVSAEIFVVCK
GFKAPKRLDPRLLDPKEVFEELPDGQQNMESKIYNPEKKVRKRQGYEEGD
NLLYHETSILDFVRTEDPISMLGEMNKFTIDENDHEWKILKKLKQTTDEF
RSCIEDLKVLGKKDFKMILRWRKIAREILTEEEQIEKDLQGLQEKQRLNV
KRERRRKNEMKQKELQRMQMNMESLFNLKTAEKTGILNDLAKGKKRMIFT
MIKDKDSAADADDLESELNAMYSDYKTRRSERDAKFRAKQARGGDNEEEW
TGFAITNLISKLKGQEGDHKLSSKARMIFNDPIFNNVEPSDFEIVANDFD
SDYDSEEEKNQTKKEKHSRDIDIATVEAMTLAHQLALGQKNKHDLVDEGF
NRYTFRDTENLPDWFLEDEKEHSKINKPITKEAAMAIKEKIKAMNARPIK
KVAEAKARKRMRAVARLEKIKKKAGLVTLVVASGRNKGLAGRPKGVKGKY
KMVDGVMKNEQRALRRIAKKHH
Ligand information
Ligand IDSAH
InChIInChI=1S/C14H20N6O5S/c15-6(14(23)24)1-2-26-3-7-9(21)10(22)13(25-7)20-5-19-8-11(16)17-4-18-12(8)20/h4-7,9-10,13,21-22H,1-3,15H2,(H,23,24)(H2,16,17,18)/t6-,7+,9+,10+,13+/m0/s1
InChIKeyZJUKTBDSGOFHSH-WFMPWKQPSA-N
SMILES
SoftwareSMILES
CACTVS 3.341N[CH](CCSC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)C(O)=O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CSCCC(C(=O)O)N)O)O)N
CACTVS 3.341N[C@@H](CCSC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)C(O)=O
ACDLabs 10.04O=C(O)C(N)CCSCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CSCC[C@@H](C(=O)O)N)O)O)N
FormulaC14 H20 N6 O5 S
NameS-ADENOSYL-L-HOMOCYSTEINE
ChEMBLCHEMBL418052
DrugBankDB01752
ZINCZINC000004228232
PDB chain7nac Chain w Residue 901 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7nac Sequence-specific remodeling of a topologically complex RNP substrate by Spb4.
Resolution3.04 Å
Binding residue
(original residue number in PDB)		S29 C54 A55 A56 S59 W60 D78 I79 D94 D119 L138
Binding residue
(residue number reindexed from 1)		S29 C54 A55 A56 S59 W60 D78 I79 D94 D119 L138
Annotation score5
Enzymatic activity
Enzyme Commision number 2.1.1.167: 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase.
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0008168 methyltransferase activity
GO:0008649 rRNA methyltransferase activity
GO:0008650 rRNA (uridine-2'-O-)-methyltransferase activity
GO:0016435 rRNA (guanine) methyltransferase activity
GO:0070039 rRNA (guanosine-2'-O-)-methyltransferase activity
Biological Process
GO:0000451 rRNA 2'-O-methylation
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000466 maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0001510 RNA methylation
GO:0006364 rRNA processing
GO:0031167 rRNA methylation
GO:0032259 methylation
GO:0042254 ribosome biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0030687 preribosome, large subunit precursor

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7nac, PDBe:7nac, PDBj:7nac
PDBsum7nac
PubMed36482249
UniProtP25582|SPB1_YEAST 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase (Gene Name=SPB1)

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