Structure of PDB 6v6s Chain d Binding Site BS01

Receptor Information
>6v6s Chain d (length=369) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
REIITLQLGQCGNQIGFEFWKQLCAEHGISPEAIVEEFTDRKDVFFYQYI
PRAVLLRVIHSILNSPYAKLYGNNWASGFSQGEKIHEDIFDIIDREADGS
DSLEGFVLCHSIAGTGSGLGSYLLERLNDRYPKKLVQTYSVFPVQPYNSL
LTLKRLTQNADCLVVLDNTALNRIATDRLHIQSFSQINQLVSTIMSASTT
TLRYPGYMNNDLIGLIASLIPTPRLHFLMTGYTPLTTVLDVMRRLLQPKN
VMVSNHCYIAILNIIQGEVDPTQVHKSLQRIRERKLANFIPWGPASIQVA
LSRKSPYLRVSGLMMANHTSISSLFERTCRQYDKLRKREDNFDEMDTSRE
IVQQLIDEYHAATRPDYIS
Ligand information
Ligand IDGDP
InChIInChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyQGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
FormulaC10 H15 N5 O11 P2
NameGUANOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL384759
DrugBankDB04315
ZINCZINC000008215481
PDB chain6v6s Chain d 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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PDB6v6s Asymmetric Molecular Architecture of the Human gamma-Tubulin Ring Complex.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		Q12 C13 G144 T145 N207 N229
Binding residue
(residue number reindexed from 1)		Q10 C11 G114 T115 N168 N188
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005200 structural constituent of cytoskeleton
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0042802 identical protein binding
Biological Process
GO:0000070 mitotic sister chromatid segregation
GO:0000212 meiotic spindle organization
GO:0000226 microtubule cytoskeleton organization
GO:0000278 mitotic cell cycle
GO:0007017 microtubule-based process
GO:0007020 microtubule nucleation
GO:0007052 mitotic spindle organization
GO:0031122 cytoplasmic microtubule organization
Cellular Component
GO:0000242 pericentriolar material
GO:0000794 condensed nuclear chromosome
GO:0000930 gamma-tubulin complex
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005814 centriole
GO:0005819 spindle
GO:0005827 polar microtubule
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0005876 spindle microtubule
GO:0005881 cytoplasmic microtubule
GO:0005929 cilium
GO:0015630 microtubule cytoskeleton
GO:0031252 cell leading edge
GO:0036064 ciliary basal body
GO:0043005 neuron projection
GO:0045177 apical part of cell
GO:0055037 recycling endosome
GO:0097730 non-motile cilium
GO:1990498 mitotic spindle microtubule

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6v6s, PDBe:6v6s, PDBj:6v6s
PDBsum6v6s
PubMed31862189
UniProtP23258|TBG1_HUMAN Tubulin gamma-1 chain (Gene Name=TUBG1)

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