Reviewed, UniProtKB/Swiss-Prot P04293 (DPOL_HHV11)

Names and origin

Protein names

Recommended name:
    DNA polymerase catalytic subunit
    EC=2.7.7.7
    EC=3.1.26.4

Gene names

ORF Names:

UL30

Organism

Human herpesvirus 1 (strain 17) (HHV-1) (Human herpes simplex virus 1)

Taxonomic identifier

10299 [NCBI]

Taxonomic lineage

Viruses › dsDNA viruses, no RNA stage › Herpesvirales › Herpesviridae › Alphaherpesvirinae › Simplexvirus

Virus host

Homo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length	1235 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Replicates viral genomic DNA. The replication complex is composed of six viral proteins: the DNA polymerase, processivity factor, primase, primase-associated factor, helicase, and ssDNA-binding protein. Additionally, the polymerase contains an intrinsic ribonuclease H (RNase H) activity that specifically degrades RNA/DNA heteroduplexes or duplex DNA substrates in the 5' to 3' direction. Therefore, it can catalyze the excision of the RNA primers that initiate the synthesis of Okazaki fragments at a replication fork during viral DNA replication. Ref.5
Catalytic activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Endonucleolytic cleavage to 5'-phosphomonoester.
Subunit structure	Forms a complex with the ssDNA-binding protein UL29, the DNA polymerase processivity factor, and the alkaline exonuclease. Interacts with the putative helicase-primase complex subunit UL8; this interaction may coordinate leading and lagging strand DNA synthesis at the replication fork By similarity.
Subcellular location	Host nucleus Potential. Note: The protein is present at discrete sites in nuclei, called replication compartments where viral DNA replication occurs By similarity.
Sequence similarities	Belongs to the DNA polymerase type-B family.
Sequence caution	The sequence CAA26941.1 differs from that shown. Reason: Frameshift at position 114.

Ontologies

Keywords
Biological process	DNA replication
Cellular component	Host nucleus
Ligand	DNA-binding
Molecular function	DNA-directed DNA polymerase Endonuclease Hydrolase Nuclease Nucleotidyltransferase Transferase
Technical term	Complete proteome Multifunctional enzyme Virus reference strain
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	host cell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1235	1235	DNA polymerase catalytic subunit		PRO_0000046511
Regions
	Compositional bias	4 – 7	4	Poly-Gly
	Compositional bias	659 – 688	30	Glu-rich
	Compositional bias	986 – 991	6	Poly-Ala
	Compositional bias	1101 – 1128	28	Pro-rich
Natural variations
	Natural variant	33	1	S → G in strain: Nonneuroinvasive mutant HF10.
	Natural variant	102	1	A → T in strain: Nonneuroinvasive mutant HF10.
	Natural variant	330	1	A → R in strain: Nonneuroinvasive mutant HF10 and 17 syn+.
	Natural variant	646	1	A → T in strain: Nonneuroinvasive mutant HF10.
	Natural variant	802	1	L → F in strain: Nonneuroinvasive mutant HF10.
	Natural variant	905	1	V → M in strain: Nonneuroinvasive mutant HF10.
	Natural variant	1203	1	A → T in strain: Nonneuroinvasive mutant HF10.
	Natural variant	1208 – 1209	2	TA → AT in strain: Nonneuroinvasive mutant HF10.

Sequences

	Sequence		Length	Mass (Da)
	P04293-1 [UniParc]. Last modified July 1, 1989. Version 2. Checksum: E8CD41D6EDED8343	FASTA	1,235	136,421
	10 20 30 40 50 60 MFSGGGGPLS PGGKSAARAA SGFFAPAGPR GASRGPPPCL RQNFYNPYLA PVGTQQKPTG 70 80 90 100 110 120 PTQRHTYYSE CDEFRFIAPR VLDEDAPPEK RAGVHDGHLK RAPKVYCGGD ERDVLRVGSG 130 140 150 160 170 180 GFWPRRSRLW GGVDHAPAGF NPTVTVFHVY DILENVEHAY GMRAAQFHAR FMDAITPTGT 190 200 210 220 230 240 VITLLGLTPE GHRVAVHVYG TRQYFYMNKE EVDRHLQCRA PRDLCERMAA ALRESPGASF 250 260 270 280 290 300 RGISADHFEA EVVERTDVYY YETRPALFYR VYVRSGRVLS YLCDNFCPAI KKYEGGVDAT 310 320 330 340 350 360 TRFILDNPGF VTFGWYRLKP GRNNTLAQPA APMAFGTSSD VEFNCTADNL AIEGGMSDLP 370 380 390 400 410 420 AYKLMCFDIE CKAGGEDELA FPVAGHPEDL VIQISCLLYD LSTTALEHVL LFSLGSCDLP 430 440 450 460 470 480 ESHLNELAAR GLPTPVVLEF DSEFEMLLAF MTLVKQYGPE FVTGYNIINF DWPFLLAKLT 490 500 510 520 530 540 DIYKVPLDGY GRMNGRGVFR VWDIGQSHFQ KRSKIKVNGM VNIDMYGIIT DKIKLSSYKL 550 560 570 580 590 600 NAVAEAVLKD KKKDLSYRDI PAYYAAGPAQ RGVIGEYCIQ DSLLVGQLFF KFLPHLELSA 610 620 630 640 650 660 VARLAGINIT RTIYDGQQIR VFTCLLRLAD QKGFILPDTQ GRFRGAGGEA PKRPAAARED 670 680 690 700 710 720 EERPEEEGED EDEREEGGGE REPEGARETA GRHVGYQGAR VLDPTSGFHV NPVVVFDFAS 730 740 750 760 770 780 LYPSIIQAHN LCFSTLSLRA DAVAHLEAGK DYLEIEVGGR RLFFVKAHVR ESLLSILLRD 790 800 810 820 830 840 WLAMRKQIRS RIPQSSPEEA VLLDKQQAAI KVVCNSVYGF TGVQHGLLPC LHVAATVTTI 850 860 870 880 890 900 GREMLLATRE YVHARWAAFE QLLADFPEAA DMRAPGPYSM RIIYGDTDSI FVLCRGLTAA 910 920 930 940 950 960 GLTAVGDKMA SHISRALFLP PIKLECEKTF TKLLLIAKKK YIGVIYGGKM LIKGVDLVRK 970 980 990 1000 1010 1020 NNCAFINRTS RALVDLLFYD DTVSGAAAAL AERPAEEWLA RPLPEGLQAF GAVLVDAHRR 1030 1040 1050 1060 1070 1080 ITDPERDIQD FVLTAELSRH PRAYTNKRLA HLTVYYKLMA RRAQVPSIKD RIPYVIVAQT 1090 1100 1110 1120 1130 1140 REVEETVARL AALRELDAAA PGDEPAPPAA LPSPAKRPRE TPSPADPPGG ASKPRKLLVS 1150 1160 1170 1180 1190 1200 ELAEDPAYAI AHGVALNTDY YFSHLLGAAC VTFKALFGNN AKITESLLKR FIPEVWHPPD 1210 1220 1230 DVAARLRTAG FGAVGAGATA EETRRMLHRA FDTLA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The complete DNA sequence of the long unique region in the genome of herpes simplex virus type 1." McGeoch D.J., Dalrymple M.A., Davison A.J., Dolan A., Frame M.C., McNab D., Perry L.J., Scott J.E., Taylor P. J. Gen. Virol. 69:1531-1574(1988) [PubMed: 2839594] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[2]	"DNA sequence of the region in the genome of herpes simplex virus type 1 containing the genes for DNA polymerase and the major DNA binding protein." Quinn J.P., McGeoch D.J. Nucleic Acids Res. 13:8143-8163(1985) [PubMed: 2999714] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Determination and analysis of the DNA sequence of highly attenuated herpes simplex virus type 1 mutant HF10, a potential oncolytic virus." Ushijima Y., Luo C., Goshima F., Yamauchi Y., Kimura H., Nishiyama Y. Microbes Infect. 9:142-149(2007) [PubMed: 17218138] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Nonneuroinvasive mutant HF10.
[4]	"Herpes simplex virus type 1 bacterial artificial chromosome." Cunningham C., Davison A.J. Submitted (DEC-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: 17 syn+.
[5]	"Herpes simplex-1 DNA polymerase. Identification of an intrinsic 5'----3' exonuclease with ribonuclease H activity." Crute J.J., Lehman I.R. J. Biol. Chem. 264:19266-19270(1989) [PubMed: 2553735] [Abstract] Cited for: FUNCTION.
[6]	"The catalytic subunit of the DNA polymerase of herpes simplex virus type 1 interacts specifically with the C terminus of the UL8 component of the viral helicase-primase complex." Marsden H.S., McLean G.W., Barnard E.C., Francis G.J., MacEachran K., Murphy M., McVey G., Cross A., Abbotts A.P., Stow N.D. J. Virol. 71:6390-6397(1997) [PubMed: 9261356] [Abstract] Cited for: INTERACTION WITH UL8.

Cross-references

Sequence databases
EMBLGenBankDDBJ	X14112 Genomic DNA. Translation: CAA32323.1. X03181 Genomic DNA. Translation: CAA26941.1. Frameshift. DQ889502 Genomic DNA. Translation: ABI63492.1. FJ593289 Genomic DNA. Translation: ACM62253.1.
PIR	DJBEV1. A00715. DJBEH7. C30085.
RefSeq	NP_044632.1.
3D structure databases
SMR	P04293. Positions 60-640, 700-1110.
ModBase	Search...
Genome annotation databases
GeneID	2703462.
Family and domain databases
InterPro	IPR006172. DNA-dir_DNA_pol_B. IPR006134. DNA-dir_DNA_pol_B_cons-reg. IPR017966. DNA-dir_DNA_pol_B_cons_reg2. IPR017964. DNA-dir_DNA_pol_B_CS. IPR006133. DNA-dir_DNA_pol_B_exonuc. [Graphical view]
PANTHER	PTHR10322. DNA_pol_B. 1 hit.
Pfam	PF00136. DNA_pol_B. 1 hit. PF03104. DNA_pol_B_exo. 1 hit. [Graphical view]
PRINTS	PR00106. DNAPOLB.
SMART	SM00486. POLBc. 1 hit. [Graphical view]
PROSITE	PS00116. DNA_POLYMERASE_B. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
DrugBank	DB00787. Aciclovir. DB00426. Famciclovir. DB00529. Foscarnet. DB01004. Ganciclovir. DB00249. Idoxuridine. DB00299. Penciclovir. DB00432. Trifluridine. DB00577. Valaciclovir. DB01610. Valganciclovir.

Entry information

Entry name

DPOL_HHV11

Accession

Primary (citable) accession number: P04293
Secondary accession number(s): B9VQF8, Q09IA3

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 20, 1987
Last sequence update:	July 1, 1989
Last modified:	November 3, 2009
This is version 67 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Virus (Virus annotation project)