Reviewed, UniProtKB/Swiss-Prot Q9V2F4 (DP2L_PYRAB)

Names and origin

Protein names

Recommended name:
    DNA polymerase II large subunit
      Short name=Pol II
    EC=2.7.7.7
Cleaved into the following chain:
    1- Recommended name:
            Pab polC intein
        Alternative name(s):
            Pab pol II intein

Gene names

Name:	polC
Ordered Locus Names:	PYRAB01200
ORF Names:	PAB2404

Organism

Pyrococcus abyssi [Complete proteome] [HAMAP]

Taxonomic identifier

29292 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	1455 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction. Has a template-primer preference which is characteristic of a replicative DNA polymerase By similarity.
Catalytic activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Degradation of single-stranded DNA. It acts progressively in a 3'- to 5'-direction, releasing nucleoside 5'-phosphates.
Subunit structure	Heterodimer of a large subunit and a small subunit By similarity.
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 archaeal DNA polymerase II family.

Ontologies

Keywords
Biological process	DNA replication
Ligand	DNA-binding
Molecular function	DNA-directed DNA polymerase Exonuclease Hydrolase Nuclease Nucleotidyltransferase Transferase
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome Multifunctional enzyme
Gene Ontology (GO)
Biological process	DNA catabolic process, exonucleolytic Inferred from electronic annotation. Source: HAMAP DNA-dependent DNA replication Inferred from electronic annotation. Source: HAMAP
Molecular function	3'-5' exonuclease activity Inferred from electronic annotation. Source: HAMAP DNA binding Inferred from electronic annotation. Source: HAMAP DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 954	954	DNA polymerase II large subunit, 1st part Potential		PRO_0000007304
	Chain	955 – 1139	185	Pab polC intein Potential		PRO_0000007305
	Chain	1140 – 1455	316	DNA polymerase II large subunit, 2nd part Potential		PRO_0000007306

Sequences

	Sequence		Length	Mass (Da)
	Q9V2F4-1 [UniParc]. Last modified May 1, 2000. Version 1. Checksum: BB092E7BB2FE0D21	FASTA	1,455	165,711
	10 20 30 40 50 60 MELPKEMEEY FEMLQREIDK AYEIAKKARA QGKDPSLDVE IPQATDMAGR VESLVGPPGV 70 80 90 100 110 120 AKRIRELVKE YGKEIAALKI VDEIIEGKFG DLGSREKYAE QAVRTALAIL TEGIVSAPIE 130 140 150 160 170 180 GIANVKIKRN TWADNSEYLA LYYAGPIRSS GGTAQALSVL VGDYVRRKLG LDRFKPSEKH 190 200 210 220 230 240 IERMVEEVDL YHRAVTRLQY HPSPEEVRLA MRNIPIEITG EATDDVEVSH RDVPGVETNQ 250 260 270 280 290 300 LRGGAILVLA EGVLQKAKKL VKYIDKMGIE GWEWLKEFVE AKEKGEPKEE GKEESLAEST 310 320 330 340 350 360 LEETKVEVDM GFYYSLYQKF KEEIAPSDKY AKEVIGGRPL FSDPSKPGGF RLRYGRSRAS 370 380 390 400 410 420 GFATWGINPA TMILVDEFLA IGTQLKTERP GKGAVVTPVT TIEGPIVKLK DGSVLRVDDY 430 440 450 460 470 480 NLALKVREDV EEILYLGDAV IAFGDFVENN QTLLPANYCE EWWILEFVKA LKEIYEVHLE 490 500 510 520 530 540 PFTENEEESI EEASDYLEID PEFLKEMLRD PLRVKPPVEL AIHFSEVLGI PLHPYYTLYW 550 560 570 580 590 600 NSVEPKDVEK LWRLLKNYAE IEWSNFRGIK FAKKIVISQE KLGDSKRTLE LLGLPHTVRD 610 620 630 640 650 660 GNVIVDYPWA AALLTPLGNL NWEFMAKPLY ATIDIINENN EIKLRDRGIS WIGARMGRPE 670 680 690 700 710 720 KAKERKMKPP VQVLFPIGLA GGSSRDIKKA AEEGKVAEVE IAFFKCPKCG HVGPEHLCPN 730 740 750 760 770 780 CGTRKELLWV CPRCNAEYPE SQAEGYNYTC PKCNVKLRPY AKRKIRPSEL LNRAMENVKV 790 800 810 820 830 840 YGVDKLKGVM GMTSGWKMPE PLEKGLLRAK NDVYVFKDGT IRFDATDAPI THFRPREIGV 850 860 870 880 890 900 SVEKLRELGY THDFEGKPLV SEDQIVELKP QDIILSKEAG RYLLKVAKFV DDLLEKFYGL 910 920 930 940 950 960 PRFYNAEKME DLIGHLVIGL APHTSAGIVG RIIGFVDALV GYAHPYFHAA KRRNCFPGDT 970 980 990 1000 1010 1020 RILVQIDGVP QKITLRELYE LFEDERYENM VYVRKKPKRE IKVYSIDLET GKVVLTDIED 1030 1040 1050 1060 1070 1080 VIKAPATDHL IRFELEDGRS FETTVDHPVL VYENGRFIEK RAFEVKEGDK VLVSELELVE 1090 1100 1110 1120 1130 1140 QSSSSQDNPK NENLGSPEHD QLLEIKNIKY VRANDDFVFS LNAKKYHNVI INENIVTHQC 1150 1160 1170 1180 1190 1200 DGDEDAVMLL LDALLNFSRY YLPEKRGGKM DAPLVITTRL DPREVDSEVH NMDIVRYYPL 1210 1220 1230 1240 1250 1260 EFYEATYELK SPKELVGVIE RVEDRLGKPE MYYGLKFTHD TDDIALGPKM SLYKQLGDME 1270 1280 1290 1300 1310 1320 EKVRRQLEVA KRIRAVDEHG VAEKILNSHL IPDLRGNLRS FTRQEFRCVK CNTKFRRPPL 1330 1340 1350 1360 1370 1380 NGKCPVCGGK IVLTVSKGAI EKYLGTAKML VTEYNVKNYT RQRICLTERD IDSLFENVFP 1390 1400 1410 1420 1430 1440 ETQLTLIVNP NDICQRLVMA RTGEVNKSGL LENLSNGSKK TEKAEKAEKP RKKSDEKPKK 1450 KRVISLEEFF SRKSK

References

[1]

"An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi." Cohen G.N., Barbe V., Flament D., Galperin M., Heilig R., Lecompte O., Poch O., Prieur D., Querellou J., Ripp R., Thierry J.-C., Van der Oost J., Weissenbach J., Zivanovic Y., Forterre P. Mol. Microbiol. 47:1495-1512(2003) [PubMed: 12622808] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: GE5 / Orsay.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AJ248283 Genomic DNA. Translation: CAB49044.1.
PIR	E75199.
RefSeq	NP_125813.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	1495007.
GenomeReviews	Gene locus PYRAB01200 in contig AL096836_GR.
KEGG	pab:PAB2404.
NMPDR	fig|272844.1.peg.131.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q9V2F4.
Enzyme and pathway databases
BioCyc	PABY272844:PAB2404-MON.
Family and domain databases
HAMAP	MF_00324. [Tree]
InterPro	IPR003587. Hedgehog_hint_N. IPR006141. Intein_splicing_site. IPR004475. PolC_DP2. IPR016033. PolC_DP2_N. [Graphical view]
Pfam	PF03833. PolC_DP2. 1 hit. [Graphical view]
SMART	SM00306. HintN. 1 hit. [Graphical view]
TIGRFAMs	TIGR01445. intein_Nterm. 1 hit. TIGR00354. polC. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. 1 hit. PS50817. INTEIN_N_TER. 1 hit. [Graphical view]
BLOCKS	Search...
ProtoNet	Search...

Entry information

Entry name

DP2L_PYRAB

Accession

Primary (citable) accession number: Q9V2F4

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 27, 2001
Last sequence update:	May 1, 2000
Last modified:	July 22, 2008
This is version 55 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)