Structure of PDB 8ojd Chain A Binding Site BS01

Receptor Information
>8ojd Chain A (length=976) Species: 10306 (Human alphaherpesvirus 1 strain KOS) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PTQRHTYYSECDEFRFIAPRVLDEDAPPEKRAGVHDGHLKRAPKVYCGGD
ERDVLRVGSGGFWPRRSRLWGGVDHAPAGFNPTVTVFHVYDILENVEHAY
GMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMNKE
EVDRHLQCRAPRDLCERMAAALRESPGASFRGISADHFEAEVVERTDVYY
YETRPALFYRVYVRSGRVLSYLCDNFCPAIKKYEGGVDATTRFILDNPGF
VTFGWYRLKPGRNNTLAQPRAPMAFGTSSDVEFNCTADNLAIEGGMSDLP
AYKLMCFDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTALEHVL
LFSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEMLLAFMTLVKQYGPE
FVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIGQSHFQ
KRSKIKVNGMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYRDI
PAYYAAGPAQRGVIGEYCIQDSLLVGQLFFKFLPHLELSAVARLAGINIT
RTIYDGQQIRVFTCLLRLADQKGFILPDTQGRVLDPTSGFHVNPVVVFDF
ASLYPSIIQAHNLCFSTLSLRADAVAHLEAGKDYLEIEVGGRRLFFVKAH
VRESLLSILLRDWLAMRKQIRSRIPQSSPEEAVLLDKQQAAIKVVCNSVY
GFTGVQHGLLPCLHVAATVTTIGREMLLATREYVHARWAAFEQLLADFPE
AADMRAPGPYSMRIIYGDTDSIFVLCRGLTAAGLTAVGDKMASHISRALF
LPPIKLECEKTFTKLLLIAKKKYIGVIYGGKMLIKGVDLVRKNNCAFINR
TSRALVDLLFYDDTVSGAAAALAERPAEEWLARPLPEGLQAFGAVLVDAH
RRITDPERDIQDFVLTAELSRHPRAYTNKRLAHLTVYYKLMARRAQVPSI
KDRIPYVIVAQTREVEETVARLAALR
Ligand information
Receptor-Ligand Complex Structure
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PDB8ojd Dynamics of the Herpes simplex virus DNA polymerase holoenzyme during DNA synthesis and proof-reading revealed by Cryo-EM
Resolution2.46 Å
Binding residue
(original residue number in PDB)		E370 C371 F381 Y465 N466 F470 F509 Y526 Y538 Y557 K960 A1035 E1036 R1039 T1045 L1049 H1051 R1071
Binding residue
(residue number reindexed from 1)		E310 C311 F321 Y405 N406 F410 F449 Y466 Y478 Y497 K842 A917 E918 R921 T927 L931 H933 R953
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.26.4: ribonuclease H.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0004519 endonuclease activity
GO:0004523 RNA-DNA hybrid ribonuclease activity
GO:0005515 protein binding
GO:0008409 5'-3' exonuclease activity
GO:0034061 DNA polymerase activity
Biological Process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0039686 bidirectional double-stranded viral DNA replication
GO:0039693 viral DNA genome replication
Cellular Component
GO:0042025 host cell nucleus
GO:0042575 DNA polymerase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8ojd, PDBe:8ojd, PDBj:8ojd
PDBsum8ojd
PubMed38806233
UniProtP04293|DPOL_HHV11 DNA polymerase catalytic subunit (Gene Name=UL30)

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