Q51334 (DPOL_PYRSD) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA polymerase
EC=2.7.7.7

Alternative name(s):
Deep vent DNA polymerase

Cleaved into the following chain:

1. Endonuclease PI-PspI
   EC=3.1.-.-
   Alternative name(s):
   Psp-GDB pol intein

Gene names

Name:

pol

Organism

Pyrococcus sp. (strain GB-D)

Taxonomic identifier

69013 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	1312 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' exonuclease activity. Intein 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.
Catalytic activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.
Biotechnological use	Used in the PCR method because of its high thermostability and low error rate. Sold by New England Biolabs.
Sequence similarities	Belongs to the DNA polymerase type-B family. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	DNA replication Intron homing
Ligand	DNA-binding
Molecular function	DNA-directed DNA polymerase Endonuclease Hydrolase Nuclease Nucleotidyltransferase Transferase
PTM	Autocatalytic cleavage Protein splicing
Technical term	Direct protein sequencing
Gene Ontology (GO)
Biological_process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro intron homing Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW endonuclease activity Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 492	492	DNA polymerase, 1st part		PRO_0000007330
	Chain	493 – 1029	537	Endonuclease PI-PspI		PRO_0000007331
	Chain	1030 – 1312	283	DNA polymerase, 2nd part		PRO_0000007332
Regions
	Domain	773 – 906	134	DOD-type homing endonuclease

Sequences

	Sequence		Length	Mass (Da)
	Q51334 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: B62518805641D26A	FASTA	1,312	152,854
	10 20 30 40 50 60 MILDADYITE DGKPIIRIFK KENGEFKVEY DRNFRPYIYA LLKDDSQIDE VRKITAERHG 70 80 90 100 110 120 KIVRIIDAEK VRKKFLGRPI EVWRLYFEHP QDVPAIRDKI REHSAVIDIF EYDIPFAKRY 130 140 150 160 170 180 LIDKGLIPME GDEELKLLAF DIETLYHEGE EFAKGPIIMI SYADEEEAKV ITWKKIDLPY 190 200 210 220 230 240 VEVVSSEREM IKRFLKVIRE KDPDVIITYN GDSFDLPYLV KRAEKLGIKL PLGRDGSEPK 250 260 270 280 290 300 MQRLGDMTAV EIKGRIHFDL YHVIRRTINL PTYTLEAVYE AIFGKPKEKV YAHEIAEAWE 310 320 330 340 350 360 TGKGLERVAK YSMEDAKVTY ELGREFFPME AQLSRLVGQP LWDVSRSSTG NLVEWYLLRK 370 380 390 400 410 420 AYERNELAPN KPDEREYERR LRESYAGGYV KEPEKGLWEG LVSLDFRSLY PSIIITHNVS 430 440 450 460 470 480 PDTLNREGCR EYDVAPEVGH KFCKDFPGFI PSLLKRLLDE RQEIKRKMKA SKDPIEKKML 490 500 510 520 530 540 DYRQRAIKIL ANSILPEEWV PLIKNGKVKI FRIGDFVDGL MKANQGKVKK TGDTEVLEVA 550 560 570 580 590 600 GIHAFSFDRK SKKARVMAVK AVIRHRYSGN VYRIVLNSGR KITITEGHSL FVYRNGDLVE 610 620 630 640 650 660 ATGEDVKIGD LLAVPRSVNL PEKRERLNIV ELLLNLSPEE TEDIILTIPV KGRKNFFKGM 670 680 690 700 710 720 LRTLRWIFGE EKRVRTASRY LRHLENLGYI RLRKIGYDII DKEGLEKYRT LYEKLVDVVR 730 740 750 760 770 780 YNGNKREYLV EFNAVRDVIS LMPEEELKEW RIGTRNGFRM GTFVDIDEDF AKLLGYYVSE 790 800 810 820 830 840 GSARKWKNQT GGWSYTVRLY NENDEVLDDM EHLAKKFFGK VKRGKNYVEI PKKMAYIIFE 850 860 870 880 890 900 SLCGTLAENK RVPEVIFTSS KGVRWAFLEG YFIGDGDVHP SKRVRLSTKS ELLVNGLVLL 910 920 930 940 950 960 LNSLGVSAIK LGYDSGVYRV YVNEELKFTE YRKKKNVYHS HIVPKDILKE TFGKVFQKNI 970 980 990 1000 1010 1020 SYKKFRELVE NGKLDREKAK RIEWLLNGDI VLDRVVEIKR EYYDGYVYDL SVDEDENFLA 1030 1040 1050 1060 1070 1080 GFGFLYAHNS YYGYYGYAKA RWYCKECAES VTAWGREYIE FVRKELEEKF GFKVLYIDTD 1090 1100 1110 1120 1130 1140 GLYATIPGAK PEEIKKKALE FVDYINAKLP GLLELEYEGF YVRGFFVTKK KYALIDEEGK 1150 1160 1170 1180 1190 1200 IITRGLEIVR RDWSEIAKET QAKVLEAILK HGNVEEAVKI VKEVTEKLSK YEIPPEKLVI 1210 1220 1230 1240 1250 1260 YEQITRPLHE YKAIGPHVAV AKRLAARGVK VRPGMVIGYI VLRGDGPISK RAILAEEFDL 1270 1280 1290 1300 1310 RKHKYDAEYY IENQVLPAVL RILEAFGYRK EDLRWQKTKQ TGLTAWLNIK KK

References

[1]	"In vitro protein splicing of purified precursor and the identification of a branched intermediate." Xu M.-Q., Southworth M.W., Mersha F.B., Hornstra L.J., Perler F.B. Cell 75:1371-1377(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 493-517.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U00707 Genomic DNA. Translation: AAA67130.1. U00707 Genomic DNA. Translation: AAA67131.1. U00707 Genomic DNA. Translation: AAA67132.1.
PIR	S68593.
3D structure databases
ProteinModelPortal	Q51334.
SMR	Q51334. Positions 1-1310.
ModBase	Search...
Protein family/group databases
REBASE	2619. PI-PspI.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
Gene3D	3.90.1600.10. 2 hits.
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. IPR004578. DNA-dir_DNA_pol_B_pol2. IPR023211. DNA_pol_palm_dom. IPR021133. HEAT_type_2. IPR003586. Hint_dom_C. IPR003587. Hint_dom_N. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splice_site. IPR012337. RNaseH-like_dom. [Graphical view]
Pfam	PF00136. DNA_pol_B. 2 hits. PF03104. DNA_pol_B_exo1. 2 hits. [Graphical view]
PRINTS	PR00106. DNAPOLB. PR00379. INTEIN.
SMART	SM00305. HintC. 1 hit. SM00306. HintN. 1 hit. SM00486. POLBc. 1 hit. [Graphical view]
SUPFAM	SSF53098. RNaseH_fold. 1 hit.
TIGRFAMs	TIGR01443. intein_Cterm. 1 hit. TIGR01445. intein_Nterm. 1 hit. TIGR00592. pol2. 2 hits.
PROSITE	PS00116. DNA_POLYMERASE_B. 1 hit. PS50818. INTEIN_C_TER. 1 hit. PS50819. INTEIN_ENDONUCLEASE. 1 hit. PS50817. INTEIN_N_TER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DPOL_PYRSD

Accession

Primary (citable) accession number: Q51334
Secondary accession number(s): Q51335, Q51336

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1996
Last modified:	April 3, 2013
This is version 95 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program