Structure of PDB 7ytj Chain D Binding Site BS03

Receptor Information
>7ytj Chain D (length=601) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MAKFGEHLSKSLIRQYSYYYISYDDLKTELEDNLSKNNGQWTQELETDFL
ESLEIELDKVYTFCKVKHSEVFRRVKEVQEQVQHTVRLLDSNNPPTQLDF
EILEEELSDIIADVHDLAKFSRLNYTGFQKIIKKHDKKTGFILKPVFQVR
LDSKPFFKENYDELVVKISQLYDIARTSGRPFVRQTTKYWVHPDNITELK
LIILKHLPVLVFNTNKEFEREDSAITSIYFDNENLDLYYGRLRKDEGAEA
HALAWYGGMSTDTIFVERKTHREDWTGEKSVKARFALKERHVNDFLKGKY
TVDQVFAKMRKEGKKPMNEIENLEALASEIQYVMLKKKLRPVVRSFYNRT
AFQLPGDARVRISLDTELTMVREDNFDGVDRTHKNWRRTDIGVDWPFKQL
DDKDICRFPYAVLNVKLQTQLGQEPPEWVRELVGSHLVEPVPKFSKFIHG
VATLLNDKVDSIPFWLPQMDVDIRKPPLFDTQIRAPPGKTICVPVRVEPK
VYFATERTYLSWLSISILLGGVSTTLLTYGSPTAMIGSIGFFITSLAVLI
RTVMVYAKRVVNIRLKRAVDYEDKIGPGMVSVFLILSILFSFFCNLVAKL
E
Ligand information
Ligand IDIHP
InChIInChI=1S/C6H18O24P6/c7-31(8,9)25-1-2(26-32(10,11)12)4(28-34(16,17)18)6(30-36(22,23)24)5(29-35(19,20)21)3(1)27-33(13,14)15/h1-6H,(H2,7,8,9)(H2,10,11,12)(H2,13,14,15)(H2,16,17,18)(H2,19,20,21)(H2,22,23,24)/t1-,2-,3-,4+,5-,6-
InChIKeyIMQLKJBTEOYOSI-GPIVLXJGSA-N
SMILES
SoftwareSMILES
CACTVS 3.385O[P](O)(=O)O[CH]1[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH]1O[P](O)(O)=O
ACDLabs 12.01
OpenEye OEToolkits 2.0.7		C1(C(C(C(C(C1OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O
CACTVS 3.385O[P](O)(=O)O[C@@H]1[C@H](O[P](O)(O)=O)[C@H](O[P](O)(O)=O)[C@@H](O[P](O)(O)=O)[C@H](O[P](O)(O)=O)[C@H]1O[P](O)(O)=O
FormulaC6 H18 O24 P6
NameINOSITOL HEXAKISPHOSPHATE;
MYO-INOSITOL HEXAKISPHOSPHATE;
INOSITOL 1,2,3,4,5,6-HEXAKISPHOSPHATE
ChEMBLCHEMBL1233511
DrugBankDB14981
ZINCZINC000169289809
PDB chain7ytj Chain D Residue 1004 [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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PDB7ytj The cytoplasmic synthesis and coupled membrane translocation of eukaryotic polyphosphate by signal-activated VTC complex.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		K301 R303 K321
Binding residue
(residue number reindexed from 1)		K288 R290 K308
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.4.1: ATP-polyphosphate phosphotransferase.
Gene Ontology
Molecular Function
GO:0000822 inositol hexakisphosphate binding
GO:0005515 protein binding
GO:0005516 calmodulin binding
GO:0008976 polyphosphate kinase activity
GO:0016740 transferase activity
Biological Process
GO:0006797 polyphosphate metabolic process
GO:0006799 polyphosphate biosynthetic process
GO:0007034 vacuolar transport
GO:0016237 microautophagy
GO:0042144 vacuole fusion, non-autophagic
GO:0061736 engulfment of target by autophagosome
Cellular Component
GO:0000329 fungal-type vacuole membrane
GO:0000421 autophagosome membrane
GO:0005737 cytoplasm
GO:0005773 vacuole
GO:0005774 vacuolar membrane
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005938 cell cortex
GO:0016020 membrane
GO:0031410 cytoplasmic vesicle
GO:0033254 vacuolar transporter chaperone complex
GO:0071944 cell periphery

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7ytj, PDBe:7ytj, PDBj:7ytj
PDBsum7ytj
PubMed36759618
UniProtP47075|VTC4_YEAST Vacuolar transporter chaperone complex subunit 4 (Gene Name=VTC4)

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