Structure of PDB 6ugd Chain E Binding Site BS02

Receptor Information
>6ugd Chain E (length=312) Species: 6239 (Caenorhabditis elegans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LPQNSAGDSFDASAYDAYIVQAVRGTMNTMSLDDIIGMHDVKQVLHEAVT
LPLLVPEFFQGLRSPWKAMVLAGPPGTGKTLIARAIASESSSTFFTVSST
DLSSKWRGDSEKIVRLLFELARFYAPSIIFIDQIDTLGGQRGNSGEHEAS
RRVKSEFLVQMDGSQNKFDSRRVFVLAATNIPWELDEALRRRFEKRIFIP
LPDIDARKKLIEKSMEGTPKSDEINYDDLAARTEGFSGADVVSLCRTAAI
NVLRRYDTKSLRGGELTAAMESLKAELVRNIDFEAALQAVSPSAGPDTML
KCKEWCDSFGAM
Ligand information
Ligand IDATP
InChIInChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyZKHQWZAMYRWXGA-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=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[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@](O)(=O)O[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
FormulaC10 H16 N5 O13 P3
NameADENOSINE-5'-TRIPHOSPHATE
ChEMBLCHEMBL14249
DrugBankDB00171
ZINCZINC000004261765
PDB chain6ugd 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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PDB6ugd Katanin Grips the beta-Tubulin Tail through an Electropositive Double Spiral to Sever Microtubules.
Resolution3.5 Å
Binding residue
(original residue number in PDB)		R351 R352
Binding residue
(residue number reindexed from 1)		R191 R192
Annotation score5
Enzymatic activity
Enzyme Commision number 5.6.1.1: microtubule-severing ATPase.
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008017 microtubule binding
GO:0008568 microtubule severing ATPase activity
GO:0016853 isomerase activity
GO:0016887 ATP hydrolysis activity
GO:0019903 protein phosphatase binding
GO:0042802 identical protein binding
GO:0060090 molecular adaptor activity
GO:0090736 MATH domain binding
Biological Process
GO:0000212 meiotic spindle organization
GO:0000226 microtubule cytoskeleton organization
GO:0007019 microtubule depolymerization
GO:0007143 female meiotic nuclear division
GO:0009792 embryo development ending in birth or egg hatching
GO:0051013 microtubule severing
GO:0051229 meiotic spindle disassembly
GO:0051301 cell division
GO:0051321 meiotic cell cycle
GO:0071688 striated muscle myosin thick filament assembly
GO:1902120 negative regulation of meiotic spindle elongation
Cellular Component
GO:0000785 chromatin
GO:0000922 spindle pole
GO:0005634 nucleus
GO:0005694 chromosome
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005819 spindle
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0008352 katanin complex
GO:0015630 microtubule cytoskeleton
GO:0072687 meiotic spindle
GO:0090619 meiotic spindle pole

View graph for
Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6ugd, PDBe:6ugd, PDBj:6ugd
PDBsum6ugd
PubMed31735665
UniProtP34808|KTNA1_CAEEL Meiotic spindle formation protein mei-1 (Gene Name=mei-1)

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