Structure of PDB 8evq Chain DC Binding Site BS05

Receptor Information
>8evq Chain DC (length=824) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VAFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAGI
TIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAA
LRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQ
VSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVYPARGTVAFGSGLHGW
AFTIRQFATRYAKKFGVDKAKMMDRLWGDSFFNPKTKKWTNKDTDAEGKP
LERAFNMFILDPIFRLFTAIMNFKKDEIPVLLEKLEIVLKGDEKDLEGKA
LLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIA
IKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNY
VPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGT
LTTSETAHNMKVMKFSVSPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCV
LTYMSESGEHIVAGTGELHLEICLQDLEHDHAGVPLKISPPVVAYRETVE
SESSQTALSKSPNKHNRIYLKAEPIDEEVSLAIENGIINPRDDFKARARI
MADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQYLHEIKDSVVAAFQ
WATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQIIPTMRRATYAGFL
LADPKIQEPVFLVEIQCPEQAVGGIYSVLNKKRGQVVSEEQRPGTPLFTV
KAYLPVNESFGFTGELRQATGGQAFPQMVFDHWSTLGSDPLDPTSKAGEI
VLAARKRHGMKEEVPGWQEYYDKL
Ligand information
Ligand IDSO1
InChIInChI=1S/C27H42O8/c1-13(2)19-8-16-9-25(11-28)18-7-6-14(3)17(18)10-26(16,27(19,25)24(31)32)12-34-23-21(30)20(29)22(33-5)15(4)35-23/h11,13-23,29-30H,6-10,12H2,1-5H3,(H,31,32)/t14-,15-,16+,17-,18-,19?,20+,21+,22-,23-,25+,26+,27+/m1/s1
InChIKeyDIBGPTPYRVEPSP-OHFCZZTFSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC1CCC2C1CC3(C4CC(C3(C2(C4)C=O)C(=O)O)C(C)C)COC5C(C(C(C(O5)C)OC)O)O
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@H](C(C)C)[C@@]35C(O)=O)C=O)[C@@H](O)[C@@H]1O
CACTVS 3.341CO[CH]1[CH](C)O[CH](OC[C]23C[CH]4[CH](C)CC[CH]4[C]5(C[CH]2C[CH](C(C)C)[C]35C(O)=O)C=O)[CH](O)[CH]1O
ACDLabs 10.04O=C(O)C53C4(COC1OC(C(OC)C(O)C1O)C)CC2C(C)CCC2C3(C=O)CC4CC5C(C)C
OpenEye OEToolkits 1.5.0C[C@@H]1CC[C@@H]2[C@@H]1C[C@@]3([C@H]4CC([C@@]3([C@@]2(C4)C=O)C(=O)O)C(C)C)CO[C@H]5[C@H]([C@@H]([C@@H]([C@H](O5)C)OC)O)O
FormulaC27 H42 O8
Name[1R-(1.ALPHA.,3A.BETA.,4.BETA.,4A.BETA.,7.BETA.,7A.ALPHA.,8A.BETA.)]8A-[(6-DEOXY-4-O-METHYL-BETA-D-ALTROPYRANOSYLOXY)METHYL]-4-FORMYL-4,4A,5,6,7,7A,8,8A-OCTAHYDRO-7-METHYL-3-(1-METHYLETHYL)-1,4-METHANO-S-INDACENE-3A(1H)-CARBOXYLIC ACID;
SORDARIN
ChEMBL
DrugBank
ZINC
PDB chain8evq Chain DC Residue 903 [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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PDB8evq Regulation of translation by ribosomal RNA pseudouridylation.
Resolution2.72 Å
Binding residue
(original residue number in PDB)
Q490 L519 Y521 S523 E524 V561 A562 F729 F798 W801
Binding residue
(residue number reindexed from 1)
Q472 L501 Y503 S505 E506 V543 A544 F711 F780 W783
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:8evq, PDBe:8evq, PDBj:8evq
PDBsum8evq
PubMed37595043
UniProtP32324|EF2_YEAST Elongation factor 2 (Gene Name=EFT1)

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