Structure of PDB 6bkf Chain A Binding Site BS03

Receptor Information
>6bkf Chain A (length=562) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TVASHVPFADLCSTLERIQKSKGRAEKIRHFREFLDSWRKFHDALHKDVT
DSFYPAMRLILPQLERERMAYGIKETMLAKLYIELLNLPRDGKDALKLLN
YRDFAMIAYFVLKPRCLQKGSLTIQQVNDLLDSIASNNSAKRKDLIKKSL
LQLITQSSALEQKWLIRMIIKDLKLGVSQQTIFSVFHNDAAELHNVTTDL
EKVCRQLHDPSVGLSDISITLFSAFKPMLAAIADIEHIEKDMKHQSFYIE
TKLDGERMQMHKDGDVYKYFSRNGYNYTDQFGASPTEGSLTPFIHNAFKA
DIQICILDGEMMAYNPNTQTFMQLQTCYCVFDVLMVNNKKLGHETLRKRY
EILSSIFTPIPGRIEIVQKTQAHTKNEVIDALNEAIDKREEGIMVKQPLS
IYKPDKRGEGWLKIKPEYVSGLMDELDILIVGGYWGKRGGMMSHFLCAVA
EKPPKPSVFHTLSRVGSGCTMKELYDLGLKLAKYWKPFHRKAPPSSILCG
TEKPEVYIEPCNSVIVQIKAAEIVPSDMYKTGCTLRFPRIEKIRDDKEWH
ECMTLDDLEQLR
Ligand information
Ligand IDAMP
InChIInChI=1S/C10H14N5O7P/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(22-10)1-21-23(18,19)20/h2-4,6-7,10,16-17H,1H2,(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyUDMBCSSLTHHNCD-KQYNXXCUSA-N
SMILES
SoftwareSMILES
CACTVS 3.370Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O
CACTVS 3.370Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.7.6c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)N
ACDLabs 12.01O=P(O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)O)N
FormulaC10 H14 N5 O7 P
NameADENOSINE MONOPHOSPHATE
ChEMBLCHEMBL752
DrugBankDB00131
ZINCZINC000003860156
PDB chain6bkf Chain A Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6bkf Structures of DNA-bound human ligase IV catalytic core reveal insights into substrate binding and catalysis.
Resolution3.25 Å
Binding residue
(original residue number in PDB)		K273 L274 R278 F367 M430 K432 K449 K451
Binding residue
(residue number reindexed from 1)		K252 L253 R257 F331 M394 K396 K413 K415
Annotation score4
Enzymatic activity
Enzyme Commision number 6.5.1.1: DNA ligase (ATP).
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003909 DNA ligase activity
GO:0003910 DNA ligase (ATP) activity
GO:0005524 ATP binding
Biological Process
GO:0006281 DNA repair
GO:0006310 DNA recombination
GO:0051103 DNA ligation involved in DNA repair
GO:0071897 DNA biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6bkf, PDBe:6bkf, PDBj:6bkf
PDBsum6bkf
PubMed29980672
UniProtP49917|DNLI4_HUMAN DNA ligase 4 (Gene Name=LIG4)

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