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Protein

Major DNA-binding protein

Gene

DBP

Organism
Human herpesvirus 1 (strain 17) (HHV-1) (Human herpes simplex virus 1)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Plays several crucial roles in viral infection. Participates in the opening of the viral DNA origin to initiate replication by interacting with the origin-binding protein. May disrupt loops, hairpins and other secondary structures present on ssDNA to reduce and eliminate pausing of viral DNA polymerase at specific sites during elongation. Promotes viral DNA recombination by performing strand-transfer, characterized by the ability to transfer a DNA strand from a linear duplex to a complementary single-stranded DNA circle. Can also catalyze the renaturation of complementary single strands. Additionally, reorganizes the host cell nucleus, leading to the formation of prereplicative sites and replication compartments. This process is driven by the protein which can form double-helical filaments in the absence of DNA.UniRule annotation5 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri499 – 512UniRule annotationAdd BLAST14

GO - Molecular functioni

  • DNA binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • single-stranded DNA binding Source: InterPro

GO - Biological processi

  • bidirectional double-stranded viral DNA replication Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

DNA replication

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Major DNA-binding proteinUniRule annotation
Gene namesi
Name:DBPUniRule annotation
Synonyms:ICP8
ORF Names:UL29
OrganismiHuman herpesvirus 1 (strain 17) (HHV-1) (Human herpes simplex virus 1)
Taxonomic identifieri10299 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageHerpesviralesHerpesviridaeAlphaherpesvirinaeSimplexvirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000009294 Componenti: Genome

Subcellular locationi

  • Host nucleus UniRule annotation2 Publications

  • Note: In the absence of DNA replication, found in the nuclear framework-associated structures (prereplicative sites). As viral DNA replication proceeds, it migrates to globular intranuclear structures (replication compartments).UniRule annotation

GO - Cellular componenti

  • host cell nucleus Source: UniProtKB
  • nuclear viral factory Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001157431 – 1196Major DNA-binding proteinAdd BLAST1196

Proteomic databases

PRIDEiP04296.

Interactioni

Subunit structurei

Homooligomers. Forms double-helical filaments necessary for the formation of replication compartments within the host nucleus (PubMed:26676794). Interacts with the origin-binding protein (PubMed:7961904). Interacts with the helicase primase complex; this interaction stimulates primer synthesis activity of the helicase-primase complex (PubMed:9129659). Interacts with the DNA polymerase (PubMed:3031068). Interacts with the alkaline exonuclease; this interaction increases its nuclease processivity (PubMed:15078942). Interacts with ICP27; this interaction plays a role in the stimulation of late gene transcription (PubMed:15582656).UniRule annotation6 Publications

Protein-protein interaction databases

BioGridi971471. 18 interactors.
IntActiP04296. 53 interactors.
MINTiMINT-191337.

Structurei

Secondary structure

11196
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi18 – 25Combined sources8
Helixi31 – 37Combined sources7
Beta strandi47 – 50Combined sources4
Beta strandi64 – 73Combined sources10
Beta strandi81 – 90Combined sources10
Beta strandi92 – 98Combined sources7
Helixi100 – 102Combined sources3
Helixi112 – 123Combined sources12
Helixi132 – 137Combined sources6
Helixi141 – 148Combined sources8
Beta strandi154 – 162Combined sources9
Turni163 – 165Combined sources3
Helixi166 – 170Combined sources5
Beta strandi174 – 176Combined sources3
Helixi178 – 180Combined sources3
Beta strandi182 – 186Combined sources5
Beta strandi189 – 198Combined sources10
Helixi199 – 202Combined sources4
Helixi234 – 243Combined sources10
Helixi245 – 251Combined sources7
Helixi257 – 269Combined sources13
Helixi310 – 331Combined sources22
Helixi342 – 344Combined sources3
Helixi346 – 348Combined sources3
Beta strandi353 – 355Combined sources3
Helixi358 – 377Combined sources20
Turni382 – 384Combined sources3
Beta strandi385 – 390Combined sources6
Beta strandi406 – 411Combined sources6
Turni413 – 417Combined sources5
Turni430 – 433Combined sources4
Helixi448 – 454Combined sources7
Turni455 – 457Combined sources3
Helixi459 – 469Combined sources11
Helixi485 – 490Combined sources6
Turni491 – 494Combined sources4
Turni504 – 509Combined sources6
Helixi511 – 517Combined sources7
Helixi519 – 521Combined sources3
Beta strandi533 – 538Combined sources6
Helixi575 – 588Combined sources14
Helixi603 – 606Combined sources4
Helixi610 – 636Combined sources27
Helixi643 – 647Combined sources5
Beta strandi651 – 657Combined sources7
Helixi667 – 693Combined sources27
Helixi703 – 716Combined sources14
Turni717 – 720Combined sources4
Beta strandi721 – 731Combined sources11
Turni744 – 746Combined sources3
Beta strandi748 – 750Combined sources3
Beta strandi759 – 761Combined sources3
Beta strandi764 – 777Combined sources14
Helixi810 – 812Combined sources3
Helixi816 – 821Combined sources6
Helixi823 – 826Combined sources4
Helixi840 – 849Combined sources10
Helixi861 – 878Combined sources18
Helixi888 – 903Combined sources16
Beta strandi913 – 923Combined sources11
Beta strandi925 – 927Combined sources3
Helixi928 – 933Combined sources6
Helixi941 – 950Combined sources10
Helixi951 – 954Combined sources4
Beta strandi960 – 967Combined sources8
Helixi969 – 974Combined sources6
Beta strandi978 – 987Combined sources10
Beta strandi999 – 1004Combined sources6
Helixi1009 – 1011Combined sources3
Beta strandi1022 – 1028Combined sources7
Turni1031 – 1033Combined sources3
Helixi1049 – 1056Combined sources8
Helixi1064 – 1073Combined sources10
Helixi1078 – 1082Combined sources5
Helixi1085 – 1091Combined sources7
Helixi1095 – 1111Combined sources17
Helixi1120 – 1125Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1URJX-ray3.00A/B1-1136[»]
SMRiP04296.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP04296.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1170 – 1196Required for nuclear localizationUniRule annotationAdd BLAST27

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi843 – 844Required for filament formationUniRule annotation2
Motifi1142 – 1144Required for filament formationUniRule annotation3

Sequence similaritiesi

Belongs to the herpesviridae major DNA-binding protein family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri499 – 512UniRule annotationAdd BLAST14

Keywords - Domaini

Zinc-finger

Phylogenomic databases

KOiK19442.

Family and domain databases

HAMAPiMF_04007. HSV_DNBI. 1 hit.
InterProiIPR000635. Viral_ssDNA-bd.
[Graphical view]
PfamiPF00747. Viral_DNA_bp. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P04296-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
METKPKTATT IKVPPGPLGY VYARACPSEG IELLALLSAR SGDSDVAVAP
60 70 80 90 100
LVVGLTVESG FEANVAVVVG SRTTGLGGTA VSLKLTPSHY SSSVYVFHGG
110 120 130 140 150
RHLDPSTQAP NLTRLCERAR RHFGFSDYTP RPGDLKHETT GEALCERLGL
160 170 180 190 200
DPDRALLYLV VTEGFKEAVC INNTFLHLGG SDKVTIGGAE VHRIPVYPLQ
210 220 230 240 250
LFMPDFSRVI AEPFNANHRS IGEKFTYPLP FFNRPLNRLL FEAVVGPAAV
260 270 280 290 300
ALRCRNVDAV ARAAAHLAFD ENHEGAALPA DITFTAFEAS QGKTPRGGRD
310 320 330 340 350
GGGKGAAGGF EQRLASVMAG DAALALESIV SMAVFDEPPT DISAWPLFEG
360 370 380 390 400
QDTAAARANA VGAYLARAAG LVGAMVFSTN SALHLTEVDD AGPADPKDHS
410 420 430 440 450
KPSFYRFFLV PGTHVAANPQ VDREGHVVPG FEGRPTAPLV GGTQEFAGEH
460 470 480 490 500
LAMLCGFSPA LLAKMLFYLE RCDGAVIVGR QEMDVFRYVA DSNQTDVPCN
510 520 530 540 550
LCTFDTRHAC VHTTLMRLRA RHPKFASAAR GAIGVFGTMN SMYSDCDVLG
560 570 580 590 600
NYAAFSALKR ADGSETARTI MQETYRAATE RVMAELETLQ YVDQAVPTAM
610 620 630 640 650
GRLETIITNR EALHTVVNNV RQVVDREVEQ LMRNLVEGRN FKFRDGLGEA
660 670 680 690 700
NHAMSLTLDP YACGPCPLLQ LLGRRSNLAV YQDLALSQCH GVFAGQSVEG
710 720 730 740 750
RNFRNQFQPV LRRRVMDMFN NGFLSAKTLT VALSEGAAIC APSLTAGQTA
760 770 780 790 800
PAESSFEGDV ARVTLGFPKE LRVKSRVLFA GASANASEAA KARVASLQSA
810 820 830 840 850
YQKPDKRVDI LLGPLGFLLK QFHAAIFPNG KPPGSNQPNP QWFWTALQRN
860 870 880 890 900
QLPARLLSRE DIETIAFIKK FSLDYGAINF INLAPNNVSE LAMYYMANQI
910 920 930 940 950
LRYCDHSTYF INTLTAIIAG SRRPPSVQAA AAWSAQGGAG LEAGARALMD
960 970 980 990 1000
AVDAHPGAWT SMFASCNLLR PVMAARPMVV LGLSISKYYG MAGNDRVFQA
1010 1020 1030 1040 1050
GNWASLMGGK NACPLLIFDR TRKFVLACPR AGFVCAASSL GGGAHESSLC
1060 1070 1080 1090 1100
EQLRGIISEG GAAVASSVFV ATVKSLGPRT QQLQIEDWLA LLEDEYLSEE
1110 1120 1130 1140 1150
MMELTARALE RGNGEWSTDA ALEVAHEAEA LVSQLGNAGE VFNFGDFGCE
1160 1170 1180 1190
DDNATPFGGP GAPGPAFAGR KRAFHGDDPF GEGPPDKKGD LTLDML
Length:1,196
Mass (Da):128,350
Last modified:March 20, 1987 - v1
Checksum:i453799162E5B99E9
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti44S → A in strain: Nonneuroinvasive mutant HF10. 1
Natural varianti224K → N in strain: Nonneuroinvasive mutant HF10 and 17 syn+. 1
Natural varianti306A → P in strain: Nonneuroinvasive mutant HF10 and 17 syn+. 1
Natural varianti428V → A in strain: Nonneuroinvasive mutant HF10. 1
Natural varianti475A → G in strain: Nonneuroinvasive mutant HF10 and 17 syn+. 1
Natural varianti964A → T in strain: Nonneuroinvasive mutant HF10. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X14112 Genomic DNA. Translation: CAA32322.1.
X03181 Genomic DNA. Translation: CAA26940.1.
M21631 Genomic DNA. Translation: AAA45787.1.
DQ889502 Genomic DNA. Translation: ABI63491.1.
FJ593289 Genomic DNA. Translation: ACM62252.1.
PIRiA03790. DNBEV1.
RefSeqiYP_009137104.1. NC_001806.2.

Genome annotation databases

GeneIDi2703458.
KEGGivg:2703458.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X14112 Genomic DNA. Translation: CAA32322.1.
X03181 Genomic DNA. Translation: CAA26940.1.
M21631 Genomic DNA. Translation: AAA45787.1.
DQ889502 Genomic DNA. Translation: ABI63491.1.
FJ593289 Genomic DNA. Translation: ACM62252.1.
PIRiA03790. DNBEV1.
RefSeqiYP_009137104.1. NC_001806.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1URJX-ray3.00A/B1-1136[»]
SMRiP04296.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi971471. 18 interactors.
IntActiP04296. 53 interactors.
MINTiMINT-191337.

Proteomic databases

PRIDEiP04296.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi2703458.
KEGGivg:2703458.

Phylogenomic databases

KOiK19442.

Miscellaneous databases

EvolutionaryTraceiP04296.

Family and domain databases

HAMAPiMF_04007. HSV_DNBI. 1 hit.
InterProiIPR000635. Viral_ssDNA-bd.
[Graphical view]
PfamiPF00747. Viral_DNA_bp. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDNBI_HHV11
AccessioniPrimary (citable) accession number: P04296
Secondary accession number(s): B9VQF7, Q09IA4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 20, 1987
Last sequence update: March 20, 1987
Last modified: November 2, 2016
This is version 97 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.