Structure of PDB 5zth Chain A Binding Site BS02

Receptor Information
>5zth Chain A (length=453) Species: 170187 (Streptococcus pneumoniae TIGR4) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MMLKKNDIVEVEIVDLTHEGAGVAKVDGLVFFVENALPSEKILMRVLKVN
KKIGFGKVEKYLVQSPHRNQDLDLAYLRSGIADLGHLSYPEQLKFKTKQV
KDSLYKIAGIADVEVAETLGMEHPVKYRNKAQVPVRRVNGVLETGFFRKN
SHNLMPLEDFFIQDPVIDQVVVALRDLLRRFDLKPYDEKEQSGLIRNLVV
RRGHYSGQIMVVLVTTRPKVFRVDQLIEQVIKQFPEIVSVMQNINDQNTN
AIFGKEWRTLYGQDYITDQMLGNDFQIAGPAFYQVNTEMAEKLYQTAIDF
AELKKDDVIIDAYSGIGTIGLSVAKHVKEVYGVELIPEAVENSQKNASLN
KITNAHYVCDTAENAMKKWLKEGIQPTVILVDPPRKGLTESFIKASAQTG
ADRIAYISCNVATMARDIKLYQELGYELKKVQPVDLFPQTHHVQTVALLS
KLD
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 chain5zth Chain A Residue 501 [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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PDB5zth Unveiling the structural features that determine the dual methyltransferase activities of Streptococcus pneumoniae RlmCD
Resolution3.24 Å
Binding residue
(original residue number in PDB)		F281 Y293 Y312 S313 T317 E333 T360 A361 D381
Binding residue
(residue number reindexed from 1)		F282 Y294 Y313 S314 T318 E334 T361 A362 D382
Annotation score4
Enzymatic activity
Enzyme Commision number 2.1.1.-
Gene Ontology
Molecular Function
GO:0008173 RNA methyltransferase activity
Biological Process
GO:0006396 RNA processing

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5zth, PDBe:5zth, PDBj:5zth
PDBsum5zth
PubMed30388185
UniProtQ97R12|Y1029_STRPN Uncharacterized RNA methyltransferase SP_1029 (Gene Name=SP_1029)

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