Structure of PDB 2c78 Chain A Binding Site BS03

Receptor Information
>2c78 Chain A (length=397) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERA
RGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSA
ADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLL
NQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDE
YIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGL
APETRKTVVTGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPG
SITPHTKFEASVYVLKKEEGGRHTGFFSGYRPQFYFRTTDVTGVVQLPPG
VEMVMPGDNVTFTVELIKPVALEEGLRFAIREGGRTVGAGVVTKILE
Ligand information
Ligand IDPUL
InChIInChI=1S/C47H66O13/c1-29-20-19-21-31(3)42(53)38(50)24-17-11-10-12-18-25-40(60-41(52)27-26-30(2)39(51)28-29)33(5)43(54)32(4)36(48)22-15-13-14-16-23-37(49)34(6)58-47-46(57-9)44(55)45(56-8)35(7)59-47/h10-24,26,28,32-35,37-40,43-47,49-51,54-55H,25,27H2,1-9H3/b11-10+,14-13+,18-12+,20-19+,22-15+,23-16+,24-17+,29-28+,30-26+,31-21+/t32-,33-,34+,35-,37+,38+,39-,40+,43-,44+,45+,46-,47-/m1/s1
InChIKeyFXSFWUNCIOIMAC-VXILMCRLSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=C1C(=CC=CC(=CC(O)C(=CCC(=O)OC(CC=CC=CC=CC1O)C(C)C(O)C(C(=O)\C=C\C=C\C=C\C(O)C(OC2OC(C(OC)C(O)C2OC)C)C)C)C)C)C
OpenEye OEToolkits 1.5.0CC1C(C(C(C(O1)OC(C)C(C=CC=CC=CC(=O)C(C)C(C(C)C2CC=CC=CC=CC(C(=O)C(=CC=CC(=CC(C(=CCC(=O)O2)C)O)C)C)O)O)O)OC)O)OC
CACTVS 3.341CO[CH]1[CH](C)O[CH](O[CH](C)[CH](O)C=CC=CC=CC(=O)[CH](C)[CH](O)[CH](C)[CH]2CC=CC=CC=C[CH](O)C(=O)C(=CC=CC(=C[CH](O)C(=CCC(=O)O2)C)C)C)[CH](OC)[CH]1O
CACTVS 3.341CO[C@H]1[C@@H](C)O[C@@H](O[C@@H](C)[C@@H](O)/C=C/C=C/C=C/C(=O)[C@@H](C)[C@@H](O)[C@H](C)[C@@H]2C/C=C/C=C/C=C/[C@H](O)C(=O)\C(=C\C=C\C(=C\[C@@H](O)\C(=C\CC(=O)O2)C)C)C)[C@H](OC)[C@H]1O
OpenEye OEToolkits 1.5.0C[C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O[C@@H](C)[C@H](\C=C\C=C\C=C\C(=O)[C@@H](C)[C@H]([C@H](C)[C@@H]2C\C=C\C=C\C=C\[C@@H](C(=O)C(=C\C=C\C(=C\[C@H](/C(=C/CC(=O)O2)/C)O)\C)C)O)O)O)OC)O)OC
FormulaC47 H66 O13
Name(1S,2S,3E,5E,7E,10S,11S,12S)-12-[(2R,4E,6E,8Z,10R,12E,14E,16Z,18S,19Z)-10,18-DIHYDROXY-12,16,19-TRIMETHYL-11,22-DIOXOOX ACYCLODOCOSA-4,6,8,12,14,16,19-HEPTAEN-2-YL]-2,11-DIHYDROXY-1,10-DIMETHYL-9-OXOTRIDECA-3,5,7-TRIEN-1-YL 6-DEOXY-2,4-DI-O-METHYL-BETA-L-GALACTOPYRANOSIDE;
PULVOMYCIN
ChEMBL
DrugBank
ZINC
PDB chain2c78 Chain A Residue 1408 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2c78 Structural basis of the action of pulvomycin and GE2270 A on elongation factor Tu.
Resolution1.4 Å
Binding residue
(original residue number in PDB)
I89 I93 T94 A97 Q98 V126 E226 F229 G240 R241 E271 H273 V286 Y343 F344 R345 T346 R385 A387 R389
Binding residue
(residue number reindexed from 1)
I81 I85 T86 A89 Q90 V118 E218 F221 G232 R233 E263 H265 V278 Y335 F336 R337 T338 R377 A379 R381
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D21 K24 T25 T62 H85
Catalytic site (residue number reindexed from 1) D13 K16 T17 T54 H77
Enzyme Commision number 3.1.5.1: dGTPase.
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003746 translation elongation factor activity
GO:0003924 GTPase activity
GO:0005525 GTP binding
Biological Process
GO:0006412 translation
GO:0006414 translational elongation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:2c78, PDBe:2c78, PDBj:2c78
PDBsum2c78
PubMed16734421
UniProtQ5SHN6|EFTU1_THET8 Elongation factor Tu-A (Gene Name=tufA)

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