UniProtKB - Q51334 (DPOL_PYRSD)
DNA polymerase
pol
Functioni
In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' exonuclease activity.
By similarityIntein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the 'homing site' in gene that lack the intein (Probable). Intein splicing has been shown to occur via a branched intermediate that is resolved as the reaction proceeds; formation of the branched intermediate is reversible in response to pH shifts (PubMed:8269515).
Curated1 PublicationCatalytic activityi
- EC:2.7.7.7
pH dependencei
GO - Molecular functioni
- DNA binding Source: UniProtKB-KW
- DNA-directed DNA polymerase activity Source: UniProtKB-KW
- endonuclease activity Source: UniProtKB-KW
- nucleotide binding Source: InterPro
GO - Biological processi
- DNA replication Source: UniProtKB-KW
- intein-mediated protein splicing Source: InterPro
- intron homing Source: UniProtKB-KW
Keywordsi
Molecular function | DNA-binding, DNA-directed DNA polymerase, Endonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase |
Biological process | DNA replication, Intron homing |
Protein family/group databases
REBASEi | 2619, PI-PspI |
Names & Taxonomyi
Protein namesi | Recommended name: DNA polymerase (EC:2.7.7.7)Alternative name(s): Deep vent DNA polymerase Cleaved into the following chain: Alternative name(s): Psp-GDB pol intein |
Gene namesi | Name:pol |
Organismi | Pyrococcus sp. (strain GB-D) |
Taxonomic identifieri | 69013 [NCBI] |
Taxonomic lineagei | Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus › unclassified Pyrococcus |
Pathology & Biotechi
Biotechnological usei
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000007330 | 1 – 492 | DNA polymerase, 1st partAdd BLAST | 492 | |
ChainiPRO_0000007331 | 493 – 1029 | Homing endonuclease PI-PspI1 PublicationAdd BLAST | 537 | |
ChainiPRO_0000007332 | 1030 – 1312 | DNA polymerase, 2nd partAdd BLAST | 283 |
Post-translational modificationi
Keywords - PTMi
Autocatalytic cleavage, Protein splicingStructurei
Secondary structure
3D structure databases
AlphaFoldDBi | Q51334 |
SMRi | Q51334 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 773 – 906 | DOD-type homing endonucleasePROSITE-ProRule annotationAdd BLAST | 134 |
Sequence similaritiesi
Family and domain databases
Gene3Di | 1.10.132.60, 1 hit 3.10.28.10, 1 hit 3.30.420.10, 1 hit 3.90.1600.10, 2 hits |
InterProi | View protein in InterPro IPR006172, 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 IPR043502, DNA/RNA_pol_sf IPR042087, DNA_pol_B_thumb IPR023211, DNA_pol_palm_dom_sf IPR021133, HEAT_type_2 IPR003586, Hint_dom_C IPR003587, Hint_dom_N IPR036844, Hint_dom_sf IPR027434, Homing_endonucl IPR006142, INTEIN IPR030934, Intein_C IPR004042, Intein_endonuc IPR006141, Intein_N IPR004860, LAGLIDADG_2 IPR041005, PI-TkoII_IV IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 2 hits PF03104, DNA_pol_B_exo1, 2 hits PF14528, LAGLIDADG_3, 1 hit PF18714, PI-TkoII_IV, 1 hit |
PRINTSi | PR00106, DNAPOLB PR00379, INTEIN |
SMARTi | View protein in SMART SM00305, HintC, 1 hit SM00306, HintN, 1 hit SM00486, POLBc, 1 hit |
SUPFAMi | SSF51294, SSF51294, 1 hit SSF53098, SSF53098, 1 hit SSF55608, SSF55608, 1 hit SSF56672, SSF56672, 2 hits |
TIGRFAMsi | TIGR01443, intein_Cterm, 1 hit TIGR01445, intein_Nterm, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit PS50818, INTEIN_C_TER, 1 hit PS50819, INTEIN_ENDONUCLEASE, 1 hit PS50817, INTEIN_N_TER, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
10 20 30 40 50
MILDADYITE DGKPIIRIFK KENGEFKVEY DRNFRPYIYA LLKDDSQIDE
60 70 80 90 100
VRKITAERHG KIVRIIDAEK VRKKFLGRPI EVWRLYFEHP QDVPAIRDKI
110 120 130 140 150
REHSAVIDIF EYDIPFAKRY LIDKGLIPME GDEELKLLAF DIETLYHEGE
160 170 180 190 200
EFAKGPIIMI SYADEEEAKV ITWKKIDLPY VEVVSSEREM IKRFLKVIRE
210 220 230 240 250
KDPDVIITYN GDSFDLPYLV KRAEKLGIKL PLGRDGSEPK MQRLGDMTAV
260 270 280 290 300
EIKGRIHFDL YHVIRRTINL PTYTLEAVYE AIFGKPKEKV YAHEIAEAWE
310 320 330 340 350
TGKGLERVAK YSMEDAKVTY ELGREFFPME AQLSRLVGQP LWDVSRSSTG
360 370 380 390 400
NLVEWYLLRK AYERNELAPN KPDEREYERR LRESYAGGYV KEPEKGLWEG
410 420 430 440 450
LVSLDFRSLY PSIIITHNVS PDTLNREGCR EYDVAPEVGH KFCKDFPGFI
460 470 480 490 500
PSLLKRLLDE RQEIKRKMKA SKDPIEKKML DYRQRAIKIL ANSILPEEWV
510 520 530 540 550
PLIKNGKVKI FRIGDFVDGL MKANQGKVKK TGDTEVLEVA GIHAFSFDRK
560 570 580 590 600
SKKARVMAVK AVIRHRYSGN VYRIVLNSGR KITITEGHSL FVYRNGDLVE
610 620 630 640 650
ATGEDVKIGD LLAVPRSVNL PEKRERLNIV ELLLNLSPEE TEDIILTIPV
660 670 680 690 700
KGRKNFFKGM LRTLRWIFGE EKRVRTASRY LRHLENLGYI RLRKIGYDII
710 720 730 740 750
DKEGLEKYRT LYEKLVDVVR YNGNKREYLV EFNAVRDVIS LMPEEELKEW
760 770 780 790 800
RIGTRNGFRM GTFVDIDEDF AKLLGYYVSE GSARKWKNQT GGWSYTVRLY
810 820 830 840 850
NENDEVLDDM EHLAKKFFGK VKRGKNYVEI PKKMAYIIFE SLCGTLAENK
860 870 880 890 900
RVPEVIFTSS KGVRWAFLEG YFIGDGDVHP SKRVRLSTKS ELLVNGLVLL
910 920 930 940 950
LNSLGVSAIK LGYDSGVYRV YVNEELKFTE YRKKKNVYHS HIVPKDILKE
960 970 980 990 1000
TFGKVFQKNI SYKKFRELVE NGKLDREKAK RIEWLLNGDI VLDRVVEIKR
1010 1020 1030 1040 1050
EYYDGYVYDL SVDEDENFLA GFGFLYAHNS YYGYYGYAKA RWYCKECAES
1060 1070 1080 1090 1100
VTAWGREYIE FVRKELEEKF GFKVLYIDTD GLYATIPGAK PEEIKKKALE
1110 1120 1130 1140 1150
FVDYINAKLP GLLELEYEGF YVRGFFVTKK KYALIDEEGK IITRGLEIVR
1160 1170 1180 1190 1200
RDWSEIAKET QAKVLEAILK HGNVEEAVKI VKEVTEKLSK YEIPPEKLVI
1210 1220 1230 1240 1250
YEQITRPLHE YKAIGPHVAV AKRLAARGVK VRPGMVIGYI VLRGDGPISK
1260 1270 1280 1290 1300
RAILAEEFDL RKHKYDAEYY IENQVLPAVL RILEAFGYRK EDLRWQKTKQ
1310
TGLTAWLNIK KK
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00707 Genomic DNA Translation: AAA67130.1 U00707 Genomic DNA Translation: AAA67131.1 U00707 Genomic DNA Translation: AAA67132.1 |
PIRi | S68593 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00707 Genomic DNA Translation: AAA67130.1 U00707 Genomic DNA Translation: AAA67131.1 U00707 Genomic DNA Translation: AAA67132.1 |
PIRi | S68593 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
5H12 | X-ray | 2.50 | A | 1-1312 | [»] | |
AlphaFoldDBi | Q51334 | |||||
SMRi | Q51334 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein family/group databases
REBASEi | 2619, PI-PspI |
Family and domain databases
Gene3Di | 1.10.132.60, 1 hit 3.10.28.10, 1 hit 3.30.420.10, 1 hit 3.90.1600.10, 2 hits |
InterProi | View protein in InterPro IPR006172, 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 IPR043502, DNA/RNA_pol_sf IPR042087, DNA_pol_B_thumb IPR023211, DNA_pol_palm_dom_sf IPR021133, HEAT_type_2 IPR003586, Hint_dom_C IPR003587, Hint_dom_N IPR036844, Hint_dom_sf IPR027434, Homing_endonucl IPR006142, INTEIN IPR030934, Intein_C IPR004042, Intein_endonuc IPR006141, Intein_N IPR004860, LAGLIDADG_2 IPR041005, PI-TkoII_IV IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 2 hits PF03104, DNA_pol_B_exo1, 2 hits PF14528, LAGLIDADG_3, 1 hit PF18714, PI-TkoII_IV, 1 hit |
PRINTSi | PR00106, DNAPOLB PR00379, INTEIN |
SMARTi | View protein in SMART SM00305, HintC, 1 hit SM00306, HintN, 1 hit SM00486, POLBc, 1 hit |
SUPFAMi | SSF51294, SSF51294, 1 hit SSF53098, SSF53098, 1 hit SSF55608, SSF55608, 1 hit SSF56672, SSF56672, 2 hits |
TIGRFAMsi | TIGR01443, intein_Cterm, 1 hit TIGR01445, intein_Nterm, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit PS50818, INTEIN_C_TER, 1 hit PS50819, INTEIN_ENDONUCLEASE, 1 hit PS50817, INTEIN_N_TER, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | DPOL_PYRSD | |
Accessioni | Q51334Primary (citable) accession number: Q51334 Secondary accession number(s): Q51335, Q51336 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 1, 1997 |
Last sequence update: | November 1, 1996 | |
Last modified: | May 25, 2022 | |
This is version 132 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-structure, Direct protein sequencingDocuments
- Intein-containing proteins
List of intein-containing protein entries - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families