UniProtKB - P03681 (TERM_BPPH2)
Primer terminal protein
3
Functioni
Acts as a primer for DNA elongation during viral genomic replication (PubMed:6813861).
Acts as the small terminase protein during packaging (PubMed:18674782).
Recruits the phage DNA polymerase to the bacterial nucleoid (PubMed:20823229).
Primer terminal protein (TP) is covalently linked to the 5'-ends of both strands of the genome through a phosphodiester bond between the beta-hydroxyl group of a serine residue and the 5'-phosphate of the terminal deoxyadenylate (dAMP) (PubMed:6813861).
To start replication, the DNA polymerase forms a heterodimer with a free TP that recognizes the replication origins at both 5' ends of the linear chromosome, and initiates replication using as primer the OH-group of Ser-232 of the TP (PubMed:22210885, PubMed:25081208).
Since the polymerase initiates the replication on the second thymine, the TP-dAMP initiation product slides backwards to recover the template information of the first nucleotide (PubMed:19011105).
6 PublicationsHydrolyzes host peptidoglycans during virus entry.
1 PublicationSites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 230 | Positions the 3' end of the template strand at the active site of the DNA polymerase1 Publication | 1 |
GO - Molecular functioni
- DNA binding Source: UniProtKB-KW
- hydrolase activity Source: UniProtKB-KW
GO - Biological processi
- disruption by virus of host cell wall peptidoglycan during virus entry Source: UniProtKB-KW
- DNA replication, synthesis of RNA primer Source: InterPro
- protein-DNA covalent cross-linking Source: InterPro
- viral DNA genome packaging Source: UniProtKB
- viral DNA genome replication Source: UniProtKB
Keywordsi
Names & Taxonomyi
Protein namesi | Recommended name: Primer terminal proteinShort name: TP Alternative name(s): DNA terminal protein Gene product 3 Short name: gp3 Protein p3 Terminal protein |
Gene namesi | Name:3 |
Organismi | Bacillus phage phi29 (Bacteriophage phi-29) |
Taxonomic identifieri | 10756 [NCBI] |
Taxonomic lineagei | Viruses › Duplodnaviria › Heunggongvirae › Uroviricota › Caudoviricetes › Caudovirales › Salasmaviridae › Picovirinae › Salasvirus |
Virus hosti | Bacillus subtilis [TaxID: 1423] |
Proteomesi |
|
Subcellular locationi
- Virion 1 Publication
- Host nucleus 1 Publication Note: Associates with the host bacterial nucleoid through its N-terminal region.1 Publication
Keywords - Cellular componenti
Host nucleus, VirionPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 19 | R → A: No effect on TP-DNA amplification activity. 60% loss of in vitro DNA-binding. 2 Publications | 1 | |
Mutagenesisi | 25 | K → A: Loss of nuclear localization; when associated with A-27. 1 Publication | 1 | |
Mutagenesisi | 25 | K → A: No effect on TP-DNA amplification activity. No effect on in vitro DNA-binding. 2 Publications | 1 | |
Mutagenesisi | 27 | K → A: 88% loss of TP-DNA amplification activity. 80% loss of in vitro DNA-binding. Impaired nucleoid localization. 2 Publications | 1 | |
Mutagenesisi | 27 | K → A: Loss of nuclear localization; when associated with A-25. 1 Publication | 1 | |
Mutagenesisi | 227 | F → V: No effect on the placement of the 3' terminus of the template strand at the polymerization active site. 1 Publication | 1 | |
Mutagenesisi | 230 | F → V: Formation of TP-dTMP is directed by the third nucleotide of the template strand instead of the second. 1 Publication | 1 | |
Mutagenesisi | 232 | S → T: Complete loss of priming activity. 1 Publication | 1 | |
Mutagenesisi | 256 | R → K: 80% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 256 | R → M: 90% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 256 | R → T: 90% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 257 | G → A: 60% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 257 | G → D: 90% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 257 | G → V: 90% loss of primer activity. 1 Publication | 1 | |
Mutagenesisi | 258 | D → E: 45% loss of primer activity. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000106556 | 1 – 266 | Primer terminal proteinAdd BLAST | 266 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 232 | O-(5'-phospho-DNA)-serine1 Publication | 1 |
Keywords - PTMi
Covalent protein-DNA linkage, PhosphoproteinInteractioni
Subunit structurei
Interacts with the viral polymerase; this interaction allows the initiation of TP-primed DNA replication at both viral DNA ends (PubMed:22210885). Binds to ssDNA (PubMed:6779279).
Interacts with the replication protein p1 (PubMed:11032825).
Part of a DNA-gp3-gp16 complex (PubMed:9086269).
4 PublicationsStructurei
Secondary structure
3D structure databases
SMRi | P03681 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P03681 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 73 | Disordered1 PublicationAdd BLAST | 73 | |
Regioni | 74 – 172 | Intermediate; makes extensive contacts with the phage DNA polymerase1 PublicationAdd BLAST | 99 | |
Regioni | 173 – 266 | Priming1 PublicationAdd BLAST | 94 | |
Regioni | 256 – 258 | Interaction with the viral DNA polymerase1 Publication | 3 |
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 86 – 113 | Sequence analysisAdd BLAST | 28 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 25 – 34 | Nuclear localization signal1 Publication | 10 |
Sequence similaritiesi
Keywords - Domaini
Coiled coilFamily and domain databases
Gene3Di | 1.20.1270.230, 1 hit |
InterProi | View protein in InterPro IPR008770, DNA_terminal_Gp3 IPR043124, DNA_terminal_Gp3_C IPR037216, DNA_terminal_Gp3_sf |
Pfami | View protein in Pfam PF05435, Phi-29_GP3, 1 hit |
PIRSFi | PIRSF004179, Phi-29_GP3, 1 hit |
SUPFAMi | SSF140919, SSF140919, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MARSPRIRIK DNDKAEYARL VKNTKAKIAR TKKKYGVDLT AEIDIPDLDS
60 70 80 90 100
FETRAQFNKW KEQASSFTNR ANMRYQFEKN AYGVVASKAK IAEIERNTKE
110 120 130 140 150
VQRLVDEKIK AMKDKEYYAG GKPQGTIEQR IAMTSPAHVT GINRPHDFDF
160 170 180 190 200
SKVRSYSRLR TLEESMEMRT DPQYYEKKMI QLQLNFIKSV EGSFNSFDAA
210 220 230 240 250
DELIEELKKI PPDDFYELFL RISEISFEEF DSEGNTVENV EGNVYKILSY
260
LEQYRRGDFD LSLKGF
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural varianti | 124 – 266 | Missing in mutant SUS3(91). Add BLAST | 143 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | V01155 Genomic DNA Translation: CAA24481.1 J02479 Genomic DNA Translation: AAA32290.1 EU771092 Genomic DNA Translation: ACE96024.1 |
PIRi | A93439, ERBP39 |
RefSeqi | YP_002004530.1, NC_011048.1 |
Genome annotation databases
GeneIDi | 6446514 |
KEGGi | vg:6446514 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | V01155 Genomic DNA Translation: CAA24481.1 J02479 Genomic DNA Translation: AAA32290.1 EU771092 Genomic DNA Translation: ACE96024.1 |
PIRi | A93439, ERBP39 |
RefSeqi | YP_002004530.1, NC_011048.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2EX3 | X-ray | 3.00 | B/D/F/H/J/L | 71-266 | [»] | |
SMRi | P03681 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Genome annotation databases
GeneIDi | 6446514 |
KEGGi | vg:6446514 |
Miscellaneous databases
EvolutionaryTracei | P03681 |
Family and domain databases
Gene3Di | 1.20.1270.230, 1 hit |
InterProi | View protein in InterPro IPR008770, DNA_terminal_Gp3 IPR043124, DNA_terminal_Gp3_C IPR037216, DNA_terminal_Gp3_sf |
Pfami | View protein in Pfam PF05435, Phi-29_GP3, 1 hit |
PIRSFi | PIRSF004179, Phi-29_GP3, 1 hit |
SUPFAMi | SSF140919, SSF140919, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | TERM_BPPH2 | |
Accessioni | P03681Primary (citable) accession number: P03681 Secondary accession number(s): B3VMN7 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 21, 1986 |
Last sequence update: | July 21, 1986 | |
Last modified: | September 29, 2021 | |
This is version 99 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families