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UniProtKB - Q9V2F3 (DP2S_PYRAB)
Protein
DNA polymerase II small subunit
Gene
polB
Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Functioni
Possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3' to 5' direction. Has a template-primer preference which is characteristic of a replicative DNA polymerase (By similarity).
By similarityCatalytic activityi
- EC:2.7.7.7
- Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates. EC:3.1.11.1
GO - Molecular functioni
- 3'-5' exonuclease activity Source: UniProtKB-UniRule
- DNA binding Source: UniProtKB-UniRule
- DNA-directed DNA polymerase activity Source: UniProtKB-UniRule
- exodeoxyribonuclease I activity Source: UniProtKB-EC
GO - Biological processi
- DNA catabolic process, exonucleolytic Source: UniProtKB-UniRule
- DNA-dependent DNA replication Source: UniProtKB-UniRule
Keywordsi
Molecular function | DNA-binding, DNA-directed DNA polymerase, Exonuclease, Hydrolase, Multifunctional enzyme, Nuclease, Nucleotidyltransferase, Transferase |
Biological process | DNA replication |
Enzyme and pathway databases
BRENDAi | 2.7.7.7, 5242 |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:polB Ordered Locus Names:PYRAB01210 ORF Names:PAB2266 |
Organismi | Pyrococcus abyssi (strain GE5 / Orsay) |
Taxonomic identifieri | 272844 [NCBI] |
Taxonomic lineagei | Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus › |
Proteomesi |
|
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000096179 | 1 – 619 | DNA polymerase II small subunitAdd BLAST | 619 |
Interactioni
Subunit structurei
Heterodimer of a large subunit and a small subunit.
By similarityProtein-protein interaction databases
STRINGi | 272844.PAB2266 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
AlphaFoldDBi | Q9V2F3 |
SMRi | Q9V2F3 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 78 – 122 | DisorderedSequence analysisAdd BLAST | 45 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 78 – 92 | Basic and acidic residuesSequence analysisAdd BLAST | 15 | |
Compositional biasi | 93 – 108 | Polar residuesSequence analysisAdd BLAST | 16 |
Sequence similaritiesi
Belongs to the DNA polymerase delta/II small subunit family.Curated
Phylogenomic databases
eggNOGi | arCOG04455, Archaea |
HOGENOMi | CLU_027850_1_0_2 |
OMAi | FIGPGNH |
OrthoDBi | 11652at2157 |
PhylomeDBi | Q9V2F3 |
Family and domain databases
Gene3Di | 2.40.50.140, 1 hit |
HAMAPi | MF_00325, DNApol_II_A_arch, 1 hit |
InterProi | View protein in InterPro IPR007185, DNA_pol_a/d/e_bsu IPR024826, DNA_pol_delta/II_ssu IPR029052, Metallo-depent_PP-like IPR012340, NA-bd_OB-fold IPR011149, Pol2_small_arc |
PANTHERi | PTHR10416, PTHR10416, 1 hit |
Pfami | View protein in Pfam PF04042, DNA_pol_E_B, 1 hit |
PIRSFi | PIRSF000803, Arc_Pol2_small, 1 hit |
SUPFAMi | SSF50249, SSF50249, 1 hit SSF56300, SSF56300, 1 hit |
i Sequence
Sequence statusi: Complete.
Q9V2F3-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MDELVKALER AGYLLTPSAY YLLVDHFKEG KFSLVELVKF AKSKGVFIID
60 70 80 90 100
GDLAYEFLQF LGLGVPQEIK ESYISTGEEA EKTVESQETR ASELEEGGVS
110 120 130 140 150
QVSSGELQEL KEESPEISTT EEEIGGLELV QSSISTGSEV EYNNGENGES
160 170 180 190 200
VVVLDKYGYP ILYAPEEIGE EKEYSKYEDV VIEWNPSVTP VQIEKNYEVK
210 220 230 240 250
FDVRQVKLRP PKVKNGSGKE GEIIVEAYAS LFKSRLSKLK RILRENPEIS
260 270 280 290 300
NVVDIGKLNY VSGDEEVTII GLVNSKRETN RGLIFEVEDK TGIVKVFLPK
310 320 330 340 350
DSEDYREAFK VLPDAVVAFK GFYSKKGIFF ANKFYLPDVP LYRKQKPPLE
360 370 380 390 400
EKVYAILISD IHVGSREFCE KAFLKFLEWL NGHVESKEEE EIVSRVKYLI
410 420 430 440 450
IAGDVVDGIG IYPGQYSDLV IPDIFDQYEA LANLLANVPE HITMFIGPGN
460 470 480 490 500
HDAARPAIPQ PEFYKEYAKP IYKLKNAIII SNPAVIRLHG RDFLIAHGRG
510 520 530 540 550
IEDVVSFVPG LTHHKPGLPM VELLKMRHLA PTFGGKVPIA PDPEDLLVIE
560 570 580 590 600
EVPDLVQMGH VHVYDAVVYR GVQLVNSATW QAQTEFQKMV NIVPTPAKVP
610
VVDVESARVV KVLDFSGWC
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ248283 Genomic DNA Translation: CAB49045.1 HE613800 Genomic DNA Translation: CCE69497.1 |
PIRi | F75199 |
RefSeqi | WP_010867245.1, NC_000868.1 |
Genome annotation databases
EnsemblBacteriai | CAB49045; CAB49045; PAB2266 |
GeneIDi | 1495008 |
KEGGi | pab:PAB2266 |
PATRICi | fig|272844.11.peg.134 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ248283 Genomic DNA Translation: CAB49045.1 HE613800 Genomic DNA Translation: CCE69497.1 |
PIRi | F75199 |
RefSeqi | WP_010867245.1, NC_000868.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
5IHE | X-ray | 2.50 | A/B | 145-619 | [»] | |
6HMF | X-ray | 2.60 | A/B | 145-619 | [»] | |
6HMS | electron microscopy | 7.10 | A | 225-619 | [»] | |
6T8H | electron microscopy | 3.77 | A | 1-619 | [»] | |
AlphaFoldDBi | Q9V2F3 | |||||
SMRi | Q9V2F3 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
STRINGi | 272844.PAB2266 |
Genome annotation databases
EnsemblBacteriai | CAB49045; CAB49045; PAB2266 |
GeneIDi | 1495008 |
KEGGi | pab:PAB2266 |
PATRICi | fig|272844.11.peg.134 |
Phylogenomic databases
eggNOGi | arCOG04455, Archaea |
HOGENOMi | CLU_027850_1_0_2 |
OMAi | FIGPGNH |
OrthoDBi | 11652at2157 |
PhylomeDBi | Q9V2F3 |
Enzyme and pathway databases
BRENDAi | 2.7.7.7, 5242 |
Family and domain databases
Gene3Di | 2.40.50.140, 1 hit |
HAMAPi | MF_00325, DNApol_II_A_arch, 1 hit |
InterProi | View protein in InterPro IPR007185, DNA_pol_a/d/e_bsu IPR024826, DNA_pol_delta/II_ssu IPR029052, Metallo-depent_PP-like IPR012340, NA-bd_OB-fold IPR011149, Pol2_small_arc |
PANTHERi | PTHR10416, PTHR10416, 1 hit |
Pfami | View protein in Pfam PF04042, DNA_pol_E_B, 1 hit |
PIRSFi | PIRSF000803, Arc_Pol2_small, 1 hit |
SUPFAMi | SSF50249, SSF50249, 1 hit SSF56300, SSF56300, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | DP2S_PYRAB | |
Accessioni | Q9V2F3Primary (citable) accession number: Q9V2F3 Secondary accession number(s): G8ZFV6 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | April 27, 2001 |
Last sequence update: | May 1, 2000 | |
Last modified: | May 25, 2022 | |
This is version 123 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structureDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families