Structure of PDB 8oja Chain A Binding Site BS01

Receptor Information
>8oja Chain A (length=1072) Species: 10306 (Human alphaherpesvirus 1 strain KOS) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TGPTQRHTYYSECDEFRFIAPRVLDEDAPPEKRAGVHDGHLKRAPKVYCG
GDERDVLRVGSGGFWPRRSRLWGGVDHAPAGFNPTVTVFHVYDILENVEH
AYGMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMN
KEEVDRHLQCRAPRDLCERMAAALRESPGASFRGISADHFEAEVVERTDV
YYYETRPALFYRVYVRSGRVLSYLCDNFCPAIKKYEGGVDATTRFILDNP
GFVTFGWYRLKPGRNNTLAQPRAPMAFGTSSDVEFNCTADNLAIEGGMSD
LPAYKLMCFDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTALEH
VLLFSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEMLLAFMTLVKQYG
PEFVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIRSKI
KVNGMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYRDIPAYYA
AGPAQRGVIGEYCIQDSLLVGQLFFKFLPHLELSAVARLAGINITRTIYD
GQQIRVFTCLLRLADQKGFILPDTRVLDPTSGFHVNPVVVFDFASLYPSI
IQAHNLCFSTLSLRADAVAHLEAGKDYLEIEVGGRRLFFVKAHVRESLLS
ILLRDWLAMRKQIRSRIPQSSPEEAVLLDKQQAAIKVVCNSVYGFTGVQH
GLLPCLHVAATVTTIGREMLLATREYVHARWAAFEQLLADFPEAADMRAP
GPYSMRIIYGDTDSIFVLCRGLTAAGLTAVGDKMASHISRALFLPPIKLE
CEKTFTKLLLIAKKKYIGVIYGGKMLIKGVDLVRKNNCAFINRTSRALVD
LLFYDDTVSGAAAALAERPAEEWLARPLPEGLQAFGAVLVDAHRRITDPE
RDIQDFVLTAELSRHPRAYTNKRLAHLTVYYKLMARRAQVPSIKDRIPYV
IVAQTREVEETVARLAALRKPRKLLVSELAEDPAYAIAHGVALNTDYYFS
HLLGAACVTFKALFGNNAKITESLLKRFIPEVWHPPDDVAARLRTAGFGA
VGAGATAEETRRMLHRAFDTLA
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8oja Dynamics of the Herpes simplex virus DNA polymerase holoenzyme during DNA synthesis and proof-reading revealed by Cryo-EM
Resolution1.87 Å
Binding residue
(original residue number in PDB)		E370 C371 F381 N466 F470 S537 Y538 K539 L540 Y557 E1036 S1038 R1039 Y1044 T1045 N1046 L1049 H1051 R1071
Binding residue
(residue number reindexed from 1)		E312 C313 F323 N408 F412 S472 Y473 K474 L475 Y492 E911 S913 R914 Y919 T920 N921 L924 H926 R946
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:8oja, PDBe:8oja, PDBj:8oja
PDBsum8oja
PubMed38806233
UniProtP04293|DPOL_HHV11 DNA polymerase catalytic subunit (Gene Name=UL30)

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