Structure of PDB 6m8q Chain A Binding Site BS03

Receptor Information
>6m8q Chain A (length=451) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SDQLLIRPLGAGQEVGRSCIILEFKGRKIMLDCGIHPGLEGMDALPYIDL
IDPAEIDLLLISHFHLDHCGALPWFLQKTSFKGRTFMTHATKAIYRWLLS
DYVKVSNISADDMLYTETDLEESMDKIETINFHEVKEVAGIKFWCYHAGH
VLGAAMFMIEIAGVKLLYTGDFSRQEDRHLMAAEIPNIKPDILIIESTYG
THIHEKREEREARFCNTVHDIVNRGGRGLIPVFALGRAQELLLILDEYWQ
NHPELHDIPIYYASSLAKKCMAVYQTYVNAMNDKIRKQININNPFVFKHI
SNLKSMDHFDDIGPSVVMASPGMMQSGLSRELFESWCTDKRNGVIIAGYC
VEGTLAKHIMSEPEEITTMSGQKLPLKMSVDYISFSAHTDYQQTSEFIRA
LKPPHVILVHGEQNEMARLKAALIREYEDNDEVHIEVHNPRNTEAVTLNF
R
Ligand information
Ligand IDJBG
InChIInChI=1S/C23H27Cl2N3O5/c1-27-7-9-28(10-8-27)11-12-33-21-17(24)14-16(20(29)19(21)25)22(30)26-18(23(31)32)13-15-5-3-2-4-6-15/h2-6,14,18,29H,7-13H2,1H3,(H,26,30)(H,31,32)/t18-/m0/s1
InChIKeyXEBIFCYTYHBFTB-SFHVURJKSA-N
SMILES
SoftwareSMILES
CACTVS 3.385CN1CCN(CCOc2c(Cl)cc(C(=O)N[C@@H](Cc3ccccc3)C(O)=O)c(O)c2Cl)CC1
ACDLabs 12.01C1CN(CCN1C)CCOc3c(cc(C(=O)NC(Cc2ccccc2)C(O)=O)c(O)c3Cl)Cl
OpenEye OEToolkits 2.0.6CN1CCN(CC1)CCOc2c(cc(c(c2Cl)O)C(=O)NC(Cc3ccccc3)C(=O)O)Cl
OpenEye OEToolkits 2.0.6CN1CCN(CC1)CCOc2c(cc(c(c2Cl)O)C(=O)N[C@@H](Cc3ccccc3)C(=O)O)Cl
CACTVS 3.385CN1CCN(CCOc2c(Cl)cc(C(=O)N[CH](Cc3ccccc3)C(O)=O)c(O)c2Cl)CC1
FormulaC23 H27 Cl2 N3 O5
NameN-{3,5-dichloro-2-hydroxy-4-[2-(4-methylpiperazin-1-yl)ethoxy]benzene-1-carbonyl}-L-phenylalanine
ChEMBL
DrugBank
ZINC
PDB chain6m8q Chain A Residue 503 [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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PDB6m8q CPSF3-dependent pre-mRNA processing as a druggable node in AML and Ewing's sarcoma.
Resolution2.49 Å
Binding residue
(original residue number in PDB)
P45 L47 E48 Y110 V240 F241 P329 G330 M331 Q333 G356
Binding residue
(residue number reindexed from 1)
P37 L39 E40 Y102 V232 F233 P321 G322 M323 Q325 G348
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=6.43,Kd=370nM
Enzymatic activity
Enzyme Commision number 3.1.27.-
External links
PDB RCSB:6m8q, PDBe:6m8q, PDBj:6m8q
PDBsum6m8q
PubMed31819276
UniProtQ9UKF6|CPSF3_HUMAN Cleavage and polyadenylation specificity factor subunit 3 (Gene Name=CPSF3)

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