Structure of PDB 7luf Chain A

Receptor sequence

>7lufA (length=1044) Species: 10298 (Human alphaherpesvirus 1)

TGPTQRHTYYSECDEFRFIAPRVLDEDAPPEKRAGVHDGHLKRAPKVYCG
GDERDVLRVGSGGFWPRRSRLWGGVDHAPAGFNPTVTVFHVYDILENVEH
AYGMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMN
KEEVDRHLQCRAPRDLCERMAAALRESPGASFRGISADHFEAEVVERTDV
YYYETRPALFYRVYVRSGRVLSYLCDNFCPAIKKYEGGVDATTRFILDNP
GFVTFGWYRLKPGRNNTLAQPRAPMAFGTSSDVEFNCTADNLAIEGGMSD
LPAYKLMCFDIACKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTALEH
VLLFSLGSCDLPESHLNELAARGLPTPVVLEFDSEFEMLLAFMTLVKQYG
PEFVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIGQSH
FQKRSKIKVNGMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYR
DIPAYYAAGPAQRGVIGEYCIQDSLLVGQLFFKFLPHLELSAVARLAGIN
ITRTIYDGQQIRVFTCLLRLADQKGFILPDTQVGYQGARVHDPTSGFHVN
PVVGFDFASLYPSIIQAHNLCFSTLSLRADAVAHLEAGKDYLEIEVGGRR
LFFVKAHVRESLLSILLRDWLAMRKQIRSRIPQSSPEEAVLLDKQQAAIK
VVCNSVYGFTGVQHGLLPCLHVAATVTTIGREMLLATREYVHARWAAFEQ
LLADFPEAADMRAPGPYSMRIIYGDTDSIFVLCRGLTAAGLTAMGDKMAS
HISRALFLPPIKLECEKTFTKLLLIAKKKYIGVIYGGKMLIKGVDLVRKN
NCAFINRTSRALVDLLFYDDTVSGAAAALAERPAEEWLARPLPEGLQAFG
AVLVDAHRRITDPERDIQDFVLTAELSRHPRAYTNKRLAHLTVYYKLMAR
RAQVPSIKDRIPYVIVAQTREVEETVARLAALRELVSELAEDPAYAIAHG
VALNTDYYFSHLLGAACVTFKALFGNNAKITESLLKRFIPEVWH

3D structure

• PDB: 7luf Structural understanding of non-nucleoside inhibition in an elongating herpesvirus polymerase.
• Chain: A
• Resolution: 3.5 Å

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	Q510 Q618 Q640 G695 Y696 Q697 G698 R700 V701 L827 K938 K940 V1139 S1140 H1164 V1171	Q452 Q560 Q582 G584 Y585 Q586 G587 R589 V590 L716 K827 K829 V986 S987 H1011 V1018
BS02	dna	A	K534 D886 T887 D888 Y941 K953 V958 R959 E1036 R1039 Y1044 T1045 R1071	K476 D775 T776 D777 Y830 K842 V847 R848 E925 R928 Y933 T934 R960
BS03	YE4	A	Q617 Q618 L721 Y722 S816 G819 F820 V823	Q559 Q560 L610 Y611 S705 G708 F709 V712	BindingDB: IC50=600nM

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

External links

• PDB: RCSB:7luf, PDBe:7luf, PDBj:7luf
• PDBsum: 7luf
• PubMed: 34031403
• UniProt: P04293|DPOL_HHV11 DNA polymerase catalytic subunit (Gene Name=UL30)