Structure of PDB 8opn Chain C Binding Site BS02

Receptor Information
>8opn Chain C (length=1186) Species: 290028,559292 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VIGDFNCTNFAINDLNTTIPRISEYVVDVSYGLGTYYILDRVYLNTTILF
TGYFPKSGANFRDLSLKGTTKLSTLWYQKPFLSDFNNGIFSRVKNTKLYV
NKTLYSEFSTIVIGSVFINNSYTIVVQPHNGVLEITACQYTMCEYPHTIC
KSIGSSRNESWHFDKSEPLCLFKKNFTYNVSTDWLYFHFYQERGTFYAYY
ADSGMPTTFLFSLYLGTLLSHYYVLPLTCNAISSNTDNETLQYWVTPLSK
RQYLLKFDDRGVITNAVDCSSSFFSEIQCKTKSLLPNTGVYDLSGFTVKP
VATVHRRIPDLPDCDIDKWLNNFNVPSPLNWERKIFSNCNFNLSTLLRLV
HTDSFSCNNFDESKIYGSCFKSIVLDKFAIPNSRRSDLQLGSSGFLQSSN
YKIDTTSSSCQLYYSLPAINVTINNYNPSSWNRRYGFNNFNLSSHSVVYS
RYCFSVNNTFCPCAKPSFASSCKSHKPPSASCPIGTNYRSCESTTVLDHT
DWCRCSCLPDPITAYDPRSCSQKKSLVGVGEHCAGFGVDEEKCGVLDGSY
NVSCLCSTDAFLGWSYDTCVSNNRCNIFSNFILNGINSGTTCSNDLLQPN
TEVFTDVCVDYDLYGITGQGIFKEVSAVYYNSWQNLLYDFNGNIIGFKDF
VTNKTYNIFPCYAGRVSAAFHQNASSLALLYRNLKCSYVLNNISLATQPY
FDSYLGCVFNADNLTDYSVSSCALRMGSGFCVDYNSYRFVTFEPFNVSFV
NDSIESVGGLYEIKIPTNFTIVGQEEFIQTNSPKVTIDCSLFVCSNYAAC
HDLLSEYGTFCDNINSILDEVNGLLDTTQLHVADTLMQGVTLSSNLNTNL
HFDVDNINFKSLVGCSRSFFEDLLFDKVKLSDVGFVEAYNNCTGGSEIRD
LLCVQSFNGIKVLPPILSESQISGYTTAATVAAMFPPWSAAAGIPFSLNV
QYRINGLGVTMDVLNKNQKLIATAFNNALLSIQNGFSATNSALAKIQSVV
NSNAQALNSLLQQLFNKFGAISSSLQEILSRLDALEAQVQIDRLINGRLT
ALNAYVSQQLSDISLVKLGAALAMEKVNECVKSQSPRINFCGNGNHILSL
VQNAPYGLLFMHFSYKPISFKTVLVSPGLCISGDVGIAPKQGYFIKHNDH
WMFTGSSYYYPEPISDKNVVFMNTCSVNFTKAPLVY
Ligand information
Ligand ID5N6
InChIInChI=1S/C13H21NO10/c1-5(15)14-9-7(17)3-13(22,12(20)21)24-11(9)10(19)8(18)4-23-6(2)16/h7-11,17-19,22H,3-4H2,1-2H3,(H,14,15)(H,20,21)/t7-,8+,9+,10+,11+,13+/m0/s1
InChIKeyNYWZBRWKDRMPAS-CTAKWSDESA-N
SMILES
SoftwareSMILES
CACTVS 3.385CC(=O)N[CH]1[CH](O)C[C](O)(O[CH]1[CH](O)[CH](O)COC(C)=O)C(O)=O
OpenEye OEToolkits 2.0.4CC(=O)N[C@@H]1[C@H](C[C@@](O[C@H]1[C@@H]([C@@H](COC(=O)C)O)O)(C(=O)O)O)O
OpenEye OEToolkits 2.0.4CC(=O)NC1C(CC(OC1C(C(COC(=O)C)O)O)(C(=O)O)O)O
CACTVS 3.385CC(=O)N[C@@H]1[C@@H](O)C[C@@](O)(O[C@H]1[C@H](O)[C@H](O)COC(C)=O)C(O)=O
FormulaC13 H21 N O10
Name9-O-acetyl-5-acetamido-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranosonic acid;
(2~{R},4~{S},5~{R},6~{R})-5-acetamido-6-[(1~{R},2~{R})-3-acetyloxy-1,2-bis(oxidanyl)propyl]-2,4-bis(oxidanyl)oxane-2-ca rboxylic acid;
9-O-acetyl-5-acetamido-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulosonic acid;
9-O-acetyl-5-acetamido-3,5-dideoxy-D-glycero-D-galacto-non-2-ulosonic acid;
9-O-acetyl-5-acetamido-3,5-dideoxy-D-glycero-galacto-non-2-ulosonic acid
ChEMBL
DrugBank
ZINC
PDB chain8opn Chain J Residue 2 [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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PDB8opn Sialoglycan binding triggers spike opening in a human coronavirus
Resolution4.7 Å
Binding residue
(original residue number in PDB)
N26 T30 T82 K84 W89
Binding residue
(residue number reindexed from 1)
N13 T17 T69 K71 W76
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003700 DNA-binding transcription factor activity
Biological Process
GO:0006355 regulation of DNA-templated transcription
GO:0019062 virion attachment to host cell
GO:0019064 fusion of virus membrane with host plasma membrane
GO:0039654 fusion of virus membrane with host endosome membrane
GO:0046718 symbiont entry into host cell
GO:0046813 receptor-mediated virion attachment to host cell
GO:0075509 endocytosis involved in viral entry into host cell
Cellular Component
GO:0016020 membrane
GO:0019031 viral envelope
GO:0020002 host cell plasma membrane
GO:0044173 host cell endoplasmic reticulum-Golgi intermediate compartment membrane
GO:0055036 virion membrane

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Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8opn, PDBe:8opn, PDBj:8opn
PDBsum8opn
PubMed37794193
UniProtE0YJ44;
P03069|GCN4_YEAST General control transcription factor GCN4 (Gene Name=GCN4)

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