UniProtKB - P94544 (POLX_BACSU)
DNA polymerase/3'-5' exonuclease PolX
polX
Functioni
Strictly DNA-template-directed DNA polymerase, preferentially acting on DNA structures containing gaps from one to a few nucleotides and bearing a phosphate group at the 5' end of the downstream DNA. The fact that PolX is able to conduct filling of a single-nucleotide gap, allowing further sealing of the resulting nick by a DNA ligase, points to a putative role in base excision repair (BER) during the B.subtilis life cycle. Moreover, also possesses a 3'-5' exonuclease activity able to edit unpaired 3'-termini in a gapped DNA substrate and likely involved in resecting unannealed 3'-termini during DNA repair. The same PolX molecule could perform the subsequent gap-filling step. Does not display 5'-deoxyribose 5'-phosphate (dRP) lyase activity, as predicted by the lack of the lysine and tyrosine residues responsible for the dRP lyase activity in some other PolX members.
2 PublicationsCatalytic activityi
- EC:2.7.7.7
- Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates. EC:3.1.11.1
Cofactori
Protein has several cofactor binding sites:- Mn2+Curated, Mg2+CuratedNote: Probably binds 2 divalent metal cations per N-terminal polymerase domain. Mn2+ is more effective than Mg2+ for DNA polymerase activity.Curated
- Mn2+CuratedNote: Probably binds 3 Mn2+ ions per C-terminal exonuclease domain. Mg2+ cannot replace Mn2+ for 3'-5' exonuclease activity.Curated
Activity regulationi
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 193 | Divalent metal cation 1Curated | 1 | |
Metal bindingi | 193 | Divalent metal cation 2Curated | 1 | |
Metal bindingi | 195 | Divalent metal cation 1Curated | 1 | |
Metal bindingi | 195 | Divalent metal cation 2Curated | 1 | |
Metal bindingi | 240 | Divalent metal cation 2By similarity | 1 | |
Metal bindingi | 339 | Manganese 1Curated | 1 | |
Metal bindingi | 341 | Manganese 1Curated | 1 | |
Metal bindingi | 371 | Manganese 2By similarity | 1 | |
Metal bindingi | 410 | Manganese 1By similarity | 1 | |
Metal bindingi | 410 | Manganese 3By similarity | 1 | |
Metal bindingi | 437 | Manganese 3By similarity | 1 | |
Metal bindingi | 465 | Manganese 3By similarity | 1 | |
Metal bindingi | 526 | Manganese 1By similarity | 1 | |
Metal bindingi | 528 | Manganese 2By similarity | 1 |
GO - Molecular functioni
- DNA binding Source: UniProtKB-KW
- DNA-directed DNA polymerase activity Source: GO_Central
- exodeoxyribonuclease I activity Source: UniProtKB-EC
- metal ion binding Source: UniProtKB-KW
GO - Biological processi
- DNA repair Source: UniProtKB-KW
- DNA replication Source: UniProtKB-KW
Keywordsi
Molecular function | DNA-binding, DNA-directed DNA polymerase, Hydrolase, Multifunctional enzyme, Nucleotidyltransferase, Transferase |
Biological process | DNA damage, DNA repair, DNA replication, DNA synthesis |
Ligand | Magnesium, Manganese, Metal-binding |
Enzyme and pathway databases
BioCyci | BSUB:BSU28590-MONOMER |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:polX Synonyms:yshC Ordered Locus Names:BSU28590 |
Organismi | Bacillus subtilis (strain 168) |
Taxonomic identifieri | 224308 [NCBI] |
Taxonomic lineagei | Bacteria › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus › |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 193 – 195 | DLD → ALA: Abolishes DNA polymerase activity. 1 Publication | 3 | |
Mutagenesisi | 339 – 341 | HMH → AMA: Abolishes 3'-5' exonuclease activity. Still possesses DNA polymerase activity. 1 Publication | 3 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000360771 | 1 – 570 | DNA polymerase/3'-5' exonuclease PolXAdd BLAST | 570 |
Proteomic databases
PaxDbi | P94544 |
Interactioni
Subunit structurei
Monomer.
1 PublicationProtein-protein interaction databases
STRINGi | 224308.BSU28590 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 315 | DNA polymerase type-XAdd BLAST | 315 | |
Regioni | 333 – 570 | 3'-5' exonucleaseAdd BLAST | 238 |
Domaini
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG1387, Bacteria COG1796, Bacteria |
InParanoidi | P94544 |
OMAi | IIAHPTG |
PhylomeDBi | P94544 |
Family and domain databases
CDDi | cd00141, NT_POLXc, 1 hit |
Gene3Di | 1.10.150.110, 1 hit 3.30.210.10, 1 hit 3.30.460.10, 1 hit |
InterProi | View protein in InterPro IPR002054, DNA-dir_DNA_pol_X IPR010996, DNA_pol_b-like_N IPR027421, DNA_pol_lamdba_lyase_dom_sf IPR037160, DNA_Pol_thumb_sf IPR003583, Hlx-hairpin-Hlx_DNA-bd_motif IPR043519, NT_sf IPR004013, PHP_dom IPR003141, Pol/His_phosphatase_N IPR016195, Pol/histidinol_Pase-like IPR029398, PolB_thumb IPR022311, UCP005047_YshC |
Pfami | View protein in Pfam PF14791, DNA_pol_B_thumb, 1 hit PF14716, HHH_8, 1 hit PF02811, PHP, 1 hit |
PIRSFi | PIRSF005047, UCP005047_YshC, 1 hit |
SMARTi | View protein in SMART SM00278, HhH1, 3 hits SM00481, POLIIIAc, 1 hit SM00483, POLXc, 1 hit |
SUPFAMi | SSF47802, SSF47802, 1 hit SSF81301, SSF81301, 1 hit SSF89550, SSF89550, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MHKKDIIRLL ETIAVYMELK GDNPFKVSAF RKAAAALEQD DRSLSEMDDM
60 70 80 90 100
MSLSGIGKGT YSVIKEYIDE GKSSTLESLQ KEVPEGLVPL LKLPGLGGKK
110 120 130 140 150
IAKLYKELGV HDAESLKEAC EQQKVQGLAG FGKKSEEKIL QALGEAGKQP
160 170 180 190 200
ERFPIGYALR IAREIEEHLS QFTHIIKFSR AGSLRRARET VKDLDYIIAT
210 220 230 240 250
DHPAEVREQL LELPNIKSVI ASGDTKVSVI LSFEYETSVD FRLVTEEQFP
260 270 280 290 300
TTLHHFTGSK DHNIKMRQIA KERGERISEY GVETVETGEI KTFPSEREFY
310 320 330 340 350
AHFGLPLIPP EIRESGQEVE TYSDSIELIE LGQIKGDLHM HSTWSDGAFS
360 370 380 390 400
IREMAEACIK KGYQYMAITD HSQYLKVANG LTAERLKQQA KEIDALNAEF
410 420 430 440 450
ENFRILKGVE MDILPDGTLD YDDDVLAEMD IVIASIHSSF NQPEHVIMKR
460 470 480 490 500
LETALTNKHV DIIAHPTGRL IGRRAGYEID IDQLIELARK TNTALELNAN
510 520 530 540 550
PARLDLRTEH LMKANEQGVT LVINTDAHNI EMLDDMKTGV TAARKGWTET
560 570
KNVLNARSLK DVEAFLKRND
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Z75208 Genomic DNA Translation: CAA99568.1 AL009126 Genomic DNA Translation: CAB14819.1 |
PIRi | C69985 |
RefSeqi | NP_390737.1, NC_000964.3 WP_003229538.1, NZ_JNCM01000036.1 |
Genome annotation databases
EnsemblBacteriai | CAB14819; CAB14819; BSU_28590 |
GeneIDi | 937426 |
KEGGi | bsu:BSU28590 |
PATRICi | fig|224308.179.peg.3106 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Z75208 Genomic DNA Translation: CAA99568.1 AL009126 Genomic DNA Translation: CAB14819.1 |
PIRi | C69985 |
RefSeqi | NP_390737.1, NC_000964.3 WP_003229538.1, NZ_JNCM01000036.1 |
3D structure databases
SMRi | P94544 |
ModBasei | Search... |
Protein-protein interaction databases
STRINGi | 224308.BSU28590 |
Proteomic databases
PaxDbi | P94544 |
Protocols and materials databases
DNASUi | 937426 |
Genome annotation databases
EnsemblBacteriai | CAB14819; CAB14819; BSU_28590 |
GeneIDi | 937426 |
KEGGi | bsu:BSU28590 |
PATRICi | fig|224308.179.peg.3106 |
Phylogenomic databases
eggNOGi | COG1387, Bacteria COG1796, Bacteria |
InParanoidi | P94544 |
OMAi | IIAHPTG |
PhylomeDBi | P94544 |
Enzyme and pathway databases
BioCyci | BSUB:BSU28590-MONOMER |
Family and domain databases
CDDi | cd00141, NT_POLXc, 1 hit |
Gene3Di | 1.10.150.110, 1 hit 3.30.210.10, 1 hit 3.30.460.10, 1 hit |
InterProi | View protein in InterPro IPR002054, DNA-dir_DNA_pol_X IPR010996, DNA_pol_b-like_N IPR027421, DNA_pol_lamdba_lyase_dom_sf IPR037160, DNA_Pol_thumb_sf IPR003583, Hlx-hairpin-Hlx_DNA-bd_motif IPR043519, NT_sf IPR004013, PHP_dom IPR003141, Pol/His_phosphatase_N IPR016195, Pol/histidinol_Pase-like IPR029398, PolB_thumb IPR022311, UCP005047_YshC |
Pfami | View protein in Pfam PF14791, DNA_pol_B_thumb, 1 hit PF14716, HHH_8, 1 hit PF02811, PHP, 1 hit |
PIRSFi | PIRSF005047, UCP005047_YshC, 1 hit |
SMARTi | View protein in SMART SM00278, HhH1, 3 hits SM00481, POLIIIAc, 1 hit SM00483, POLXc, 1 hit |
SUPFAMi | SSF47802, SSF47802, 1 hit SSF81301, SSF81301, 1 hit SSF89550, SSF89550, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | POLX_BACSU | |
Accessioni | P94544Primary (citable) accession number: P94544 Secondary accession number(s): Q795X4 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | January 20, 2009 |
Last sequence update: | May 1, 1997 | |
Last modified: | February 23, 2022 | |
This is version 129 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
Reference proteomeDocuments
- SIMILARITY comments
Index of protein domains and families