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Protein

DNA polymerase II

Gene

polB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Thought to be involved in DNA repair and/or mutagenesis.

Catalytic activityi

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

Enzyme regulationi

DNA polymerase II activity is regulated by the lexA gene during the SOS response.

GO - Molecular functioni

  • 3'-5'-exodeoxyribonuclease activity Source: EcoCyc
  • DNA binding Source: UniProtKB-KW
  • DNA-directed DNA polymerase activity Source: EcoCyc
  • nucleotide binding Source: InterPro

GO - Biological processi

  • DNA-dependent DNA replication Source: EcoCyc
  • DNA replication proofreading Source: EcoCyc
  • SOS response Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA damage, DNA repair, SOS response

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10747-MONOMER.
ECOL316407:JW0059-MONOMER.
MetaCyc:EG10747-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase II (EC:2.7.7.7)
Short name:
Pol II
Gene namesi
Name:polB
Synonyms:dinA
Ordered Locus Names:b0060, JW0059
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10747. polB.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved2 Publications
ChainiPRO_00000464732 – 783DNA polymerase IIAdd BLAST782

Proteomic databases

PaxDbiP21189.
PRIDEiP21189.

Interactioni

Protein-protein interaction databases

BioGridi4261621. 106 interactors.
IntActiP21189. 5 interactors.
STRINGi511145.b0060.

Structurei

Secondary structure

1783
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 15Combined sources14
Beta strandi18 – 27Combined sources10
Beta strandi30 – 35Combined sources6
Beta strandi41 – 46Combined sources6
Helixi47 – 49Combined sources3
Helixi50 – 56Combined sources7
Turni57 – 59Combined sources3
Beta strandi62 – 71Combined sources10
Beta strandi77 – 85Combined sources9
Helixi86 – 98Combined sources13
Helixi110 – 117Combined sources8
Beta strandi121 – 131Combined sources11
Beta strandi134 – 142Combined sources9
Beta strandi152 – 159Combined sources8
Beta strandi165 – 172Combined sources8
Beta strandi175 – 183Combined sources9
Beta strandi192 – 200Combined sources9
Helixi201 – 215Combined sources15
Beta strandi218 – 224Combined sources7
Turni225 – 228Combined sources4
Helixi229 – 240Combined sources12
Turni248 – 250Combined sources3
Beta strandi254 – 257Combined sources4
Beta strandi259 – 261Combined sources3
Beta strandi265 – 268Combined sources4
Beta strandi273 – 276Combined sources4
Helixi277 – 283Combined sources7
Helixi293 – 301Combined sources9
Beta strandi305 – 307Combined sources3
Helixi310 – 323Combined sources14
Helixi325 – 346Combined sources22
Helixi348 – 359Combined sources12
Turni363 – 366Combined sources4
Helixi369 – 383Combined sources15
Beta strandi410 – 413Combined sources4
Beta strandi415 – 420Combined sources6
Helixi423 – 431Combined sources9
Helixi435 – 443Combined sources9
Turni447 – 449Combined sources3
Beta strandi450 – 452Combined sources3
Beta strandi454 – 456Combined sources3
Beta strandi458 – 462Combined sources5
Helixi466 – 482Combined sources17
Helixi486 – 501Combined sources16
Helixi502 – 504Combined sources3
Helixi513 – 536Combined sources24
Beta strandi540 – 543Combined sources4
Beta strandi545 – 552Combined sources8
Helixi559 – 582Combined sources24
Turni583 – 585Combined sources3
Beta strandi592 – 603Combined sources12
Beta strandi609 – 612Combined sources4
Beta strandi617 – 623Combined sources7
Beta strandi626 – 634Combined sources9
Helixi635 – 637Combined sources3
Helixi643 – 657Combined sources15
Helixi663 – 674Combined sources12
Turni675 – 678Combined sources4
Helixi679 – 681Combined sources3
Beta strandi684 – 688Combined sources5
Helixi692 – 694Combined sources3
Helixi701 – 715Combined sources15
Beta strandi725 – 733Combined sources9
Beta strandi736 – 739Combined sources4
Helixi740 – 742Combined sources3
Helixi749 – 755Combined sources7
Helixi757 – 762Combined sources6
Helixi765 – 768Combined sources4
Helixi772 – 779Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Q8IX-ray2.00A1-783[»]
3K57X-ray2.08A1-783[»]
3K58X-ray2.05A1-783[»]
3K59X-ray1.92A1-783[»]
3K5LX-ray2.70A1-783[»]
3K5MX-ray2.04A1-783[»]
3K5NX-ray3.15A/B1-783[»]
3K5OX-ray2.20A/B1-783[»]
3MAQX-ray2.40A1-783[»]
ProteinModelPortaliP21189.
SMRiP21189.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP21189.

Family & Domainsi

Sequence similaritiesi

Belongs to the DNA polymerase type-B family.Curated

Phylogenomic databases

eggNOGiENOG4105CQ2. Bacteria.
COG0417. LUCA.
HOGENOMiHOG000221829.
InParanoidiP21189.
KOiK02336.
OMAiKAIDNPW.
PhylomeDBiP21189.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
3.90.1600.10. 2 hits.
InterProiIPR006172. DNA-dir_DNA_pol_B.
IPR017964. DNA-dir_DNA_pol_B_CS.
IPR006133. DNA-dir_DNA_pol_B_exonuc.
IPR006134. DNA-dir_DNA_pol_B_multi_dom.
IPR023211. DNA_pol_palm_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamiPF00136. DNA_pol_B. 1 hit.
PF03104. DNA_pol_B_exo1. 2 hits.
[Graphical view]
PRINTSiPR00106. DNAPOLB.
SMARTiSM00486. POLBc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS00116. DNA_POLYMERASE_B. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P21189-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAQAGFILTR HWRDTPQGTE VSFWLATDNG PLQVTLAPQE SVAFIPADQV
60 70 80 90 100
PRAQHILQGE QGFRLTPLAL KDFHRQPVYG LYCRAHRQLM NYEKRLREGG
110 120 130 140 150
VTVYEADVRP PERYLMERFI TSPVWVEGDM HNGTIVNARL KPHPDYRPPL
160 170 180 190 200
KWVSIDIETT RHGELYCIGL EGCGQRIVYM LGPENGDASS LDFELEYVAS
210 220 230 240 250
RPQLLEKLNA WFANYDPDVI IGWNVVQFDL RMLQKHAERY RLPLRLGRDN
260 270 280 290 300
SELEWREHGF KNGVFFAQAK GRLIIDGIEA LKSAFWNFSS FSLETVAQEL
310 320 330 340 350
LGEGKSIDNP WDRMDEIDRR FAEDKPALAT YNLKDCELVT QIFHKTEIMP
360 370 380 390 400
FLLERATVNG LPVDRHGGSV AAFGHLYFPR MHRAGYVAPN LGEVPPHASP
410 420 430 440 450
GGYVMDSRPG LYDSVLVLDY KSLYPSIIRT FLIDPVGLVE GMAQPDPEHS
460 470 480 490 500
TEGFLDAWFS REKHCLPEIV TNIWHGRDEA KRQGNKPLSQ ALKIIMNAFY
510 520 530 540 550
GVLGTTACRF FDPRLASSIT MRGHQIMRQT KALIEAQGYD VIYGDTDSTF
560 570 580 590 600
VWLKGAHSEE EAAKIGRALV QHVNAWWAET LQKQRLTSAL ELEYETHFCR
610 620 630 640 650
FLMPTIRGAD TGSKKRYAGL IQEGDKQRMV FKGLETVRTD WTPLAQQFQQ
660 670 680 690 700
ELYLRIFRNE PYQEYVRETI DKLMAGELDA RLVYRKRLRR PLSEYQRNVP
710 720 730 740 750
PHVRAARLAD EENQKRGRPL QYQNRGTIKY VWTTNGPEPL DYQRSPLDYE
760 770 780
HYLTRQLQPV AEGILPFIED NFATLMTGQL GLF
Length:783
Mass (Da):90,053
Last modified:January 23, 2007 - v2
Checksum:i1A12A21B2FDB0E22
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti172G → A in AAA24406 (PubMed:2261080).Curated1
Sequence conflicti172G → A in AAA24407 (PubMed:2261080).Curated1
Sequence conflicti257 – 258EH → DD in AAA63764 (PubMed:2217198).Curated2
Sequence conflicti257 – 258EH → DD in AAA23684 (PubMed:2217198).Curated2
Sequence conflicti272R → G in AAA63764 (PubMed:2217198).Curated1
Sequence conflicti272R → G in AAA23684 (PubMed:2217198).Curated1
Sequence conflicti735N → T in AAA24406 (PubMed:2261080).Curated1
Sequence conflicti735N → T in AAA24407 (PubMed:2261080).Curated1
Sequence conflicti740 – 783LDYQR…QLGLF → PGLPTFTTGLRTLSDPPATT RGGGNTPFY (PubMed:2261080).CuratedAdd BLAST44

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti401G → D in allele POLB100. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X54847 Genomic DNA. Translation: CAA38616.1.
M62646 Genomic DNA. Translation: AAA24406.1.
M35371 Genomic DNA. Translation: AAA24407.1.
M38283 Genomic DNA. Translation: AAA63764.1.
U00096 Genomic DNA. Translation: AAC73171.1.
AP009048 Genomic DNA. Translation: BAB96628.2.
M37727 Genomic DNA. Translation: AAA23684.1.
PIRiS15943. JDEC22.
RefSeqiNP_414602.1. NC_000913.3.
WP_000035670.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73171; AAC73171; b0060.
BAB96628; BAB96628; BAB96628.
GeneIDi944779.
KEGGiecj:JW0059.
eco:b0060.
PATRICi32115221. VBIEscCol129921_0062.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X54847 Genomic DNA. Translation: CAA38616.1.
M62646 Genomic DNA. Translation: AAA24406.1.
M35371 Genomic DNA. Translation: AAA24407.1.
M38283 Genomic DNA. Translation: AAA63764.1.
U00096 Genomic DNA. Translation: AAC73171.1.
AP009048 Genomic DNA. Translation: BAB96628.2.
M37727 Genomic DNA. Translation: AAA23684.1.
PIRiS15943. JDEC22.
RefSeqiNP_414602.1. NC_000913.3.
WP_000035670.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Q8IX-ray2.00A1-783[»]
3K57X-ray2.08A1-783[»]
3K58X-ray2.05A1-783[»]
3K59X-ray1.92A1-783[»]
3K5LX-ray2.70A1-783[»]
3K5MX-ray2.04A1-783[»]
3K5NX-ray3.15A/B1-783[»]
3K5OX-ray2.20A/B1-783[»]
3MAQX-ray2.40A1-783[»]
ProteinModelPortaliP21189.
SMRiP21189.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261621. 106 interactors.
IntActiP21189. 5 interactors.
STRINGi511145.b0060.

Proteomic databases

PaxDbiP21189.
PRIDEiP21189.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73171; AAC73171; b0060.
BAB96628; BAB96628; BAB96628.
GeneIDi944779.
KEGGiecj:JW0059.
eco:b0060.
PATRICi32115221. VBIEscCol129921_0062.

Organism-specific databases

EchoBASEiEB0740.
EcoGeneiEG10747. polB.

Phylogenomic databases

eggNOGiENOG4105CQ2. Bacteria.
COG0417. LUCA.
HOGENOMiHOG000221829.
InParanoidiP21189.
KOiK02336.
OMAiKAIDNPW.
PhylomeDBiP21189.

Enzyme and pathway databases

BioCyciEcoCyc:EG10747-MONOMER.
ECOL316407:JW0059-MONOMER.
MetaCyc:EG10747-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP21189.
PROiP21189.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
3.90.1600.10. 2 hits.
InterProiIPR006172. DNA-dir_DNA_pol_B.
IPR017964. DNA-dir_DNA_pol_B_CS.
IPR006133. DNA-dir_DNA_pol_B_exonuc.
IPR006134. DNA-dir_DNA_pol_B_multi_dom.
IPR023211. DNA_pol_palm_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamiPF00136. DNA_pol_B. 1 hit.
PF03104. DNA_pol_B_exo1. 2 hits.
[Graphical view]
PRINTSiPR00106. DNAPOLB.
SMARTiSM00486. POLBc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS00116. DNA_POLYMERASE_B. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDPO2_ECOLI
AccessioniPrimary (citable) accession number: P21189
Secondary accession number(s): Q8KMX7, Q8KMX8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1991
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 152 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.