Structure of PDB 7pu7 Chain A Binding Site BS05

Receptor Information
>7pu7 Chain A (length=1070) Species: 1773 (Mycobacterium tuberculosis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GSSFVHLHNHTEYSMLDGAAKITPMLAEVERLGMPAVGMTDHGNMFGASE
FYNSATKAGIKPIIGVEAYIAPGSRFDTRRILWGDPSQKADDVSGSGSYT
HLTMMAENATGLRNLFKLSSHASFEGQLSKWSRMDAELIAEHAEGIIITT
GCPSGEVQTRLRLGQDREALEAAAKWREIVGPDNYFLELMDHGLTIERRV
RDGLLEIGRALNIPPLATNDCHYVTRDAAHNHEALLCVQTGKTLSDPNRF
KFDGDGYYLKSAAEMRQIWDDEVPGACDSTLLIAERVQSYADVWTPRDRM
PVFPVPDGHDQASWLRHEVDAGLRRRFPAGPPDGYRERAAYEIDVICSKG
FPSYFLIVADLISYARSAGIRVGPGRGSAAGSLVAYALGITDIDPIPHGL
LFERFLNPERTSMPDIDIDFDDRRRGEMVRYAADKWGHDRVAQVITFGTI
KTKAALKDSARIHYGQPGFAIADRITKALPPAIMAKDIPLSGITDPSHER
YKEAAEVRGLIETDPDVRTIYQTARGLEGLIRNAGVHACAVIMSSEPLTE
AIPLWKRPQDGAIITGWDYPACEAIGLLKMDFLGLRNLTIIGDAIDNVRA
NRGIDLDLESVPLDDKATYELLGRGDTLGVFQLDGGPMRDLLRRMQPTGF
EDVVAVIALYRPGPMGMNAHNDYADRKNNRQAIKPIHPELEEPLREILAE
TYGLIVYQEQIMRIAQKVASYSLARADILRKAMGKKKREVLEKEFEGFSD
GMQANGFSPAAIKALWDTILPFADYAFNKSHAAGYGMVSYWTAYLKANYP
AEYMAGLLTSVGDDKDKAAVYLADCRKLGITVLPPDVNESGLNFASVGQD
IRYGLGAVRNVGANVVGSLLQTRNDKGKFTDFSDYLNKIDISACNKKVTE
SLIKAGAFDSLGHARKGLFLVHSDAVDSVLGTKKFTIKVPDDEWEDKHKL
ALEREMLGLYVSGHPLNGVAHLLAAQVDTAIPAILDGDVPNDAQVRVGGI
LASVNRRVNKNGMPWASAQLEDLTGGIEVMFFPHTYSSYGADIVDDAVVL
VNAKVAVRDDRIALIANDLT
Ligand information
Ligand ID82W
InChIInChI=1S/C28H37NO8/c1-13-11-14(2)28-17(12-20(34-5)27(33)35-23(13)16(4)30)8-9-18-21(28)22(31)15(3)24(25(18)37-28)36-26(32)19-7-6-10-29-19/h6-11,13,15-18,20-25,29-31H,12H2,1-5H3/b14-11+/t13-,15-,16-,17-,18-,20+,21+,22-,23+,24-,25-,28+/m1/s1
InChIKeyYEUSSARNQQYBKH-SIMZXIQRSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7C[C@@H]1/C=C(/[C@]23[C@@H](C[C@@H](C(=O)O[C@@H]1[C@@H](C)O)OC)C=C[C@@H]4[C@H]2[C@@H]([C@H]([C@H]([C@@H]4O3)OC(=O)c5ccc[nH]5)C)O)\C
CACTVS 3.385CO[CH]1C[CH]2C=C[CH]3[CH]4O[C]2([CH]3[CH](O)[CH](C)[CH]4OC(=O)c5[nH]ccc5)C(=C[CH](C)[CH](OC1=O)[CH](C)O)C
CACTVS 3.385CO[C@H]1C[C@H]2C=C[C@H]3[C@H]4O[C@@]2([C@@H]3[C@H](O)[C@@H](C)[C@H]4OC(=O)c5[nH]ccc5)C(=C/[C@@H](C)[C@H](OC1=O)[C@@H](C)O)/C
OpenEye OEToolkits 2.0.7CC1C=C(C23C(CC(C(=O)OC1C(C)O)OC)C=CC4C2C(C(C(C4O3)OC(=O)c5ccc[nH]5)C)O)C
FormulaC28 H37 N O8
Name[(1~{S},3~{R},4~{R},5~{R},6~{R},7~{S},8~{R},11~{S},13~{S},16~{S},17~{R},18~{E})-13-methoxy-5,17,19-trimethyl-6-oxidanyl-16-[(1~{R})-1-oxidanylethyl]-14-oxidanylidene-2,15-dioxatetracyclo[9.8.0.0^{1,7}.0^{3,8}]nonadeca-9,18-dien-4-yl] 1~{H}-pyrrole-2-carboxylate
ChEMBL
DrugBank
ZINC
PDB chain7pu7 Chain A Residue 1204 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7pu7 DNA-Dependent Binding of Nargenicin to DnaE1 Inhibits Replication in Mycobacterium tuberculosis.
Resolution2.9 Å
Binding residue
(original residue number in PDB)
Q638 M644 Y666 F783
Binding residue
(residue number reindexed from 1)
Q632 M638 Y660 F777
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003824 catalytic activity
GO:0003887 DNA-directed DNA polymerase activity
GO:0008408 3'-5' exonuclease activity
Biological Process
GO:0006260 DNA replication
GO:0071897 DNA biosynthetic process
Cellular Component
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0009274 peptidoglycan-based cell wall

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:7pu7, PDBe:7pu7, PDBj:7pu7
PDBsum7pu7
PubMed35143160
UniProtP9WNT7|DPO3A_MYCTU DNA polymerase III subunit alpha (Gene Name=dnaE1)

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