Structure of PDB 8ojb Chain A

Receptor sequence
>8ojbA (length=835) Species: 10306 (Human alphaherpesvirus 1 strain KOS) [Search protein sequence]
TGPTQRHTYYSECDEFRFIAPRVLDEDAPPEKRAGVHDGHLKRAPKVYCG
GDERDVLRVGSGGFWPRRSRLWGGVDHAPAGFNPTVTVFHVYDILENVEH
AYGMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMN
KEEVDRHLQCRAPRDLCERMAAALRESPGASFRGISADHFEAEVVERTDV
YYYETRPALFYRVYVRSGRVLSYLCDNFCPAIKKYEGGVDATTRFILDNP
GFVTFGWYRLKPGRNNTLAQPRAPMAFGTSSDVEFNCTADNLAIEGGMSD
LPAYKLMCFDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTALEH
VLLFSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEMLLAFMTLVKQYG
PEFVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIGQSH
FQKRSKIKVNGMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYR
DIPAYYAAGPAQRGVIGEYCIQDSLLVGQLFFKFLPHLELSAVARLAGIN
ITRTIYDGQQIRVFTCLLRLADQKGFILPDTRVLDPTSGFHVNPVVVFDF
ASLYPSIIQAHNLCFSTLSLRADAVAHLEAGKDYLEIEVGGRRLFFVKAH
VRESLLSILLRDWLAMRKQIRSRIPQSSPEEAVLLDKQQAAIKVVCNSVY
GFTGVQHGLLPCLHVAATVTTIGREMLLATREYVHARWAAFEQLLADFPE
AADMRAPGPYSMRIIYGDTDSIFVLCRGLTAAGLTAVGDKMASHISRALF
LPPIKLECEKTFTKLLLIAKKKYIGVIYGGKMLIK
3D structure
PDB8ojb Dynamics of the Herpes simplex virus DNA polymerase holoenzyme during DNA synthesis and proof-reading revealed by Cryo-EM
ChainA
Resolution1.9 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.26.4: ribonuclease H.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna A E370 C371 F381 Y465 N466 F470 Y538 K539 L540 Y557 E312 C313 F323 Y407 N408 F412 Y480 K481 L482 Y499
BS02 CA A D368 Y465 D471 D310 Y407 D413
BS03 CA A D368 I369 E370 D310 I311 E312
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:8ojb, PDBe:8ojb, PDBj:8ojb
PDBsum8ojb
PubMed38806233
UniProtP04293|DPOL_HHV11 DNA polymerase catalytic subunit (Gene Name=UL30)

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