Structure of PDB 2npf Chain B Binding Site BS01

Receptor Information
>2npf Chain B (length=813) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAGITI
KSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDDFSSEVTAALRVTDGA
LVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLY
QTFARTVESVNVIVSTYADEVLGDVQVYPARGTVAFGSGLHGWAFTIRQF
ATRYAKKFGVDKAKMMDRLWGDSFFNPKTKKWTNKDTDAEGKPLERAFNM
FILDPIFRLFTAIMNFKKDEIPVLLEKLEIVLKGDEKDLEGKALLKVVMR
KFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIAIKNCDPK
ADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVPGKKDD
LFIKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGTLTTSETA
HNMKVMKFSVSPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCVLTYMSES
GEHIVAGTGELHLEICLQDLEHDHAGVPLKISPPVVAYRETVESESSQTA
LSKSPNKHNRIYLKAEPIDEEVSLAIENGIINPRDDFKARARIMADDYGW
DVTDARKIWCFGPDGNGPNLVIDQTKAVQYLHEIKDSVVAAFQWATKEGP
IFGEEMRSVRVNILDVTLHADAIHRGGGQIIPTMRRATYAGFLLADPKIQ
EPVFLVEIQCPEQAVGGIYSVLNKKRGQVVSEEQPLFTVKAYLPVNESFG
FTGELRQATGGQAFPQMVFDHWSTLGSDPLDPTSKAGEIVLAARKRHGMK
EEVPGWQEYYDKL
Ligand information
Ligand IDMOU
InChIInChI=1S/C37H54O12/c1-20(2)26-15-23-16-34(18-38)25-14-13-21(3)24(25)17-35(23,36(26,34)33(43)44)19-46-32-29(41)37(30(45-5)22(4)47-32)48-27(31(42)49-37)11-9-7-6-8-10-12-28(39)40/h15,18,20-25,27,29-30,32,41H,6-14,16-17,19H2,1-5H3,(H,39,40)(H,43,44)/t21-,22-,23+,24-,25-,27+,29-,30-,32-,34+,35+,36+,37-/m1/s1
InChIKeyUDEBDAZBOLNLCQ-FTMOPRGTSA-N
SMILES
SoftwareSMILES
CACTVS 3.341CO[C@@H]1[C@@H](C)O[C@@H](OC[C@@]23C[C@@H]4[C@H](C)CC[C@H]4[C@]5(C[C@@H]2C=C(C(C)C)[C@@]35C(O)=O)C=O)[C@@H](O)[C@]16O[C@@H](CCCCCCCC(O)=O)C(=O)O6
OpenEye OEToolkits 1.5.0CC1CCC2C1CC3(C4CC2(C3(C(=C4)C(C)C)C(=O)O)C=O)COC5C(C6(C(C(O5)C)OC)OC(C(=O)O6)CCCCCCCC(=O)O)O
OpenEye OEToolkits 1.5.0C[C@@H]1CC[C@@H]2[C@@H]1C[C@@]3([C@@H]4C[C@]2([C@]3(C(=C4)C(C)C)C(=O)O)C=O)CO[C@H]5[C@H]([C@@]6([C@@H]([C@H](O5)C)OC)O[C@H](C(=O)O6)CCCCCCCC(=O)O)O
CACTVS 3.341CO[CH]1[CH](C)O[CH](OC[C]23C[CH]4[CH](C)CC[CH]4[C]5(C[CH]2C=C(C(C)C)[C]35C(O)=O)C=O)[CH](O)[C]16O[CH](CCCCCCCC(O)=O)C(=O)O6
ACDLabs 10.04O=CC41CC2C=C(C(C)C)C1(C(=O)O)C2(CC3C(C)CCC34)COC6OC(C)C(OC)C5(OC(=O)C(O5)CCCCCCCC(=O)O)C6O
FormulaC37 H54 O12
Name(1S,4R,5R,9S,11S)-2-({[(2S,5R,6R,7R,9S,10R)-2-(7-CARBOXYHEPTYL)-6-HYDROXY-10-METHOXY-9-METHYL-3-OXO-1,4,8-TRIOXASPIRO[4 .5]DEC-7-YL]OXY}METHYL)-9-FORMYL-13-ISOPROPYL-5-METHYLTETRACYCLO[7.4.0.02,11.04.8]TRIDEC-12-ENE-1-CARBOXYLIC ACID;
MORINIAFUNGIN
ChEMBLCHEMBL1234422
DrugBank
ZINCZINC000098209184
PDB chain2npf Chain B Residue 1901 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2npf Sordarin derivatives induce a novel conformation of the yeast ribosome translocation factor eEF2
Resolution2.9 Å
Binding residue
(original residue number in PDB)
V488 Q490 Y521 S523 E524 V561 A562 S777 G779 T781 M796 F798 W801
Binding residue
(residue number reindexed from 1)
V463 Q465 Y496 S498 E499 V536 A537 S748 G750 T752 M767 F769 W772
Annotation score1
Enzymatic activity
Enzyme Commision number 3.6.5.-
Gene Ontology
Molecular Function
GO:0003746 translation elongation factor activity
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0016787 hydrolase activity
GO:0019843 rRNA binding
GO:0042802 identical protein binding
GO:0043022 ribosome binding
GO:0051087 protein-folding chaperone binding
Biological Process
GO:0006412 translation
GO:0006414 translational elongation
GO:0045901 positive regulation of translational elongation
GO:1990145 maintenance of translational fidelity
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:2npf, PDBe:2npf, PDBj:2npf
PDBsum2npf
PubMed17082187
UniProtP32324|EF2_YEAST Elongation factor 2 (Gene Name=EFT1)

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