O59610 (DPOL_PYRHO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA polymerase
EC=2.7.7.7

Cleaved into the following chain:

1. Pho pol intein
   Alternative name(s):
   Pho Pol I intein

Gene names

Name:	pol
Ordered Locus Names:	PH1947
ORF Names:	PHBT047

Organism

Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) [Complete proteome] [HAMAP]

Taxonomic identifier

70601 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	1235 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

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 Potential.
Sequence similarities	Belongs to the DNA polymerase type-B family. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	DNA replication
Ligand	DNA-binding
Molecular function	DNA-directed DNA polymerase Nucleotidyltransferase Transferase
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
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: InterPro 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 Potential		PRO_0000007322
	Chain	493 – 952	460	Pho pol intein Potential		PRO_0000007323
	Chain	953 – 1235	283	DNA polymerase, 2nd part Potential		PRO_0000007324
Regions
	Domain	773 – 887	115	DOD-type homing endonuclease

Sequences

	Sequence		Length	Mass (Da)
	O59610 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: 73CC7AA14873CCE4	FASTA	1,235	143,087
	10 20 30 40 50 60 MILDADYITE DGKPIIRIFK KENGEFKVEY DRNFRPYIYA LLRDDSAIDE IKKITAQRHG 70 80 90 100 110 120 KVVRIVETEK IQRKFLGRPI EVWKLYLEHP QDVPAIRDKI REHPAVVDIF EYDIPFAKRY 130 140 150 160 170 180 LIDKGLTPME GNEKLTFLAV DIETLYHEGE EFGKGPVIMI SYADEEGAKV ITWKKIDLPY 190 200 210 220 230 240 VEVVSSEREM IKRLIRVIKE KDPDVIITYN GDNFDFPYLL KRAEKLGIKL LLGRDNSEPK 250 260 270 280 290 300 MQKMGDSLAV EIKGRIHFDL FPVIRRTINL PTYTLEAVYE AIFGKPKEKV YADEIAKAWE 310 320 330 340 350 360 TGEGLERVAK YSMEDAKVTY ELGREFFPME AQLARLVGQP VWDVSRSSTG NLVEWFLLRK 370 380 390 400 410 420 AYERNELAPN KPDEKEYERR LRESYEGGYV KEPEKGLWEG IVSLDFRSLY PSIIITHNVS 430 440 450 460 470 480 PDTLNREGCE EYDVAPKVGH RFCKDFPGFI PSLLGQLLEE RQKIKKRMKE SKDPVEKKLL 490 500 510 520 530 540 DYRQRAIKIL ANSILPDEWL PIVENEKVRF VKIGDFIDRE IEENAERVKR DGETEILEVK 550 560 570 580 590 600 DLKALSFNRE TKKSELKKVK ALIRHRYSGK VYSIKLKSGR RIKITSGHSL FSVKNGKLVK 610 620 630 640 650 660 VRGDELKPGD LVVVPGRLKL PESKQVLNLV ELLLKLPEEE TSNIVMMIPV KGRKNFFKGM 670 680 690 700 710 720 LKTLYWIFGE GERPRTAGRY LKHLERLGYV KLKRRGCEVL DWESLKRYRK LYETLIKNLK 730 740 750 760 770 780 YNGNSRAYMV EFNSLRDVVS LMPIEELKEW IIGEPRGPKI GTFIDVDDSF AKLLGYYISS 790 800 810 820 830 840 GDVEKDRVKF HSKDQNVLED IAKLAEKLFG KVRRGRGYIE VSGKISHAIF RVLAEGKRIP 850 860 870 880 890 900 EFIFTSPMDI KVAFLKGLNG NAEELTFSTK SELLVNQLIL LLNSIGVSDI KIEHEKGVYR 910 920 930 940 950 960 VYINKKESSN GDIVLDSVES IEVEKYEGYV YDLSVEDNEN FLVGFGLLYA HNSYYGYYGY 970 980 990 1000 1010 1020 AKARWYCKEC AESVTAWGRQ YIDLVRRELE ARGFKVLYID TDGLYATIPG VKDWEEVKRR 1030 1040 1050 1060 1070 1080 ALEFVDYINS KLPGVLELEY EGFYARGFFV TKKKYALIDE EGKIVTRGLE IVRRDWSEIA 1090 1100 1110 1120 1130 1140 KETQARVLEA ILKHGNVEEA VKIVKDVTEK LTNYEVPPEK LVIYEQITRP INEYKAIGPH 1150 1160 1170 1180 1190 1200 VAVAKRLMAR GIKVKPGMVI GYIVLRGDGP ISKRAISIEE FDPRKHKYDA EYYIENQVLP 1210 1220 1230 AVERILKAFG YKREDLRWQK TKQVGLGAWI KVKKS

References

[1]

"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. , Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Yoshizawa T., Nakamura Y., Robb F.T., Horikoshi K., Masuchi Y., Shizuya H., Kikuchi H. DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BA000001 Genomic DNA. Translation: BAA31074.1.
PIR	C71210.
RefSeq	NP_143776.1. NC_000961.1.
3D structure databases
ProteinModelPortal	O59610.
SMR	O59610. Positions 1-1233.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	EBPYRT00000002020; EBPYRP00000002020; EBPYRG00000002020.
GeneID	1442795.
GenomeReviews	Gene locus PH1947 in contig BA000001_GR.
KEGG	pho:PH1947.
NMPDR	fig|70601.1.peg.1909.
Organism-specific databases
CMR	Search...
Phylogenomic databases
GeneTree	EBGT00050000022160.
HOGENOM	HBG539137.
OMA	ALIRHRY.
PhylomeDB	O59610.
ProtClustDB	CLSK390722.
Enzyme and pathway databases
BioCyc	PHOR70601:PH1947-MONOMER.
Family and domain databases
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. IPR003586. Hedgehog_hint_C. IPR003587. Hedgehog_hint_N. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splice_site. IPR012337. RNaseH-like_dom. [Graphical view]
Gene3D	G3DSA:3.90.1600.10. DNA_pol_palm_dom. 2 hits.
KO	K02319.
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_PYRHO

Accession

Primary (citable) accession number: O59610

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	August 1, 1998
Last modified:	December 14, 2011
This is version 85 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program