Structure of PDB 7dy2 Chain K Binding Site BS01

Receptor Information
>7dy2 Chain K (length=465) Species: 1140 (Synechococcus elongatus PCC 7942 = FACHB-805) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGI
IEFDEPGVFVTFEETPQDIIKNARSFGWLAKLVDEGKLFILDASPDDLSA
LIERINYAIQKYRARRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIG
ATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKL
RGTSHMKGEYPFTITDHGINIFPQRSSNVRVSSGVVRLDEMCGGGFFKDS
IILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWG
MDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSA
LARGVSNNAFRQFVIGVTGYAKQEEITGLFTNTSDQFMGAHSITDSHIST
ITDTIILLQYVEIRGEMSRAINVFKMRGSWHDKAIREFMISDKGPDIKDS
FRNFERIISGSPTRI
Ligand information
Ligand IDADP
InChIInChI=1S/C10H15N5O10P2/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(24-10)1-23-27(21,22)25-26(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyXTWYTFMLZFPYCI-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N
FormulaC10 H15 N5 O10 P2
NameADENOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL14830
DrugBankDB16833
ZINCZINC000012360703
PDB chain7dy2 Chain K Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB7dy2 Elucidation of master allostery essential for circadian clock oscillation in cyanobacteria.
Resolution3.04 Å
Binding residue
(original residue number in PDB)		G49 G51 K52 T53 L54 S89 F90 R218
Binding residue
(residue number reindexed from 1)		G35 G37 K38 T39 L40 S75 F76 R193
Annotation score5
Enzymatic activity
Enzyme Commision number 2.7.11.1: non-specific serine/threonine protein kinase.
3.6.4.-
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0004674 protein serine/threonine kinase activity
GO:0004712 protein serine/threonine/tyrosine kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0042802 identical protein binding
GO:0044024 histone H2AS1 kinase activity
GO:0046872 metal ion binding
GO:0106310 protein serine kinase activity
Biological Process
GO:0006338 chromatin remodeling
GO:0006355 regulation of DNA-templated transcription
GO:0007623 circadian rhythm
GO:0009649 entrainment of circadian clock
GO:0016310 phosphorylation
GO:0042752 regulation of circadian rhythm
GO:0042754 negative regulation of circadian rhythm
GO:0048511 rhythmic process
GO:0070297 regulation of phosphorelay signal transduction system

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:7dy2, PDBe:7dy2, PDBj:7dy2
PDBsum7dy2
PubMed35427168
UniProtQ79PF4|KAIC_SYNE7 Circadian clock oscillator protein KaiC (Gene Name=kaiC)

[Back to BioLiP]