Reviewed, UniProtKB/Swiss-Prot Q18ER3 (DP2L_HALWD)

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 2 chains:
    1- Recommended name:
            Hwa polC 1 intein
        Alternative name(s):
            Hwa pol II 1 intein
    2- Recommended name:
            Hwa polC 2 intein
        Alternative name(s):
            Hwa pol II 2 intein

Gene names

Name:	polC
Synonyms:	polA2
Ordered Locus Names:	HQ3461A

Organism

Haloquadratum walsbyi (strain DSM 16790) [Complete proteome] [HAMAP]

Taxonomic identifier

362976 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Haloquadratum

Protein attributes

Sequence length	2289 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. Contains 2 DOD-type homing endonuclease domains.

Ontologies

Keywords
Biological process	DNA replication Intron homing
Domain	Repeat
Ligand	DNA-binding
Molecular function	DNA-directed DNA polymerase Endonuclease 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 intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro intron homing Inferred from electronic annotation. Source: UniProtKB-KW
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 endonuclease activity 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 – 966	966	DNA polymerase II large subunit, 1st part Potential		PRO_0000294680
	Chain	967 – 1495	529	Hwa polC 1 intein Potential		PRO_0000294681
	Chain	1496 – 1524	29	DNA polymerase II large subunit, 2nd part Potential		PRO_0000294682
	Chain	1525 – 2068	544	Hwa polC 2 intein Potential		PRO_0000294683
	Chain	2069 – 2289	221	DNA polymerase II large subunit, 3rd part Potential		PRO_0000294684
Regions
	Domain	1222 – 1367	146	DOD-type homing endonuclease 1
	Domain	1755 – 1911	157	DOD-type homing endonuclease 2

Sequences

	Sequence		Length	Mass (Da)
	Q18ER3-1 [UniParc]. Last modified July 25, 2006. Version 1. Checksum: A5E70294203AFF05	FASTA	2,289	255,812
	10 20 30 40 50 60 MRDADKQYFE TLESHLEQAF ARARQAKGQG YDPKPEVEIP VARDMADRVE NILAIPDVAE 70 80 90 100 110 120 RIRELDDERS REEVALELVT DFVEGTVGDY DTREGKIEGA VRTAVALLTE GVVAAPIEGI 130 140 150 160 170 180 DRVEILSDDD GSEFVNVYYA GPIRSAGGTA QALSVLVADY ARSLLDIDEY SARTDETERY 190 200 210 220 230 240 AEEVSLYDRE TGLQYSPKDK ETKFITKHMP IMLDGEATGN EEVSGYRDLE RVDTNAARGG 250 260 270 280 290 300 MCLVLAEGIA LKAPKIQRYT RQLAEVEWPW LQDLIDDTIG SDEHSNNSVK NGEADIVKTD 310 320 330 340 350 360 KDTNESETED GIDNDDYNDS GLEPANSPRA DATNKYLRDL IAGRPVFGHP SAAGAFRLRY 370 380 390 400 410 420 GRARNHGFAT AGVHPATMHI VDDFIATGTQ LKTERPGKAG GVVPVDSIKG PTVRLANGDV 430 440 450 460 470 480 RCINDPEEAE KLQNGVEKIL DLGEYLVNFG EFIENNHPLA PAAYVFEWWI QEFEASNADV 490 500 510 520 530 540 QALRDDPTVD LESPTFENAM RWAKKHDIPL HPAYTYLWHD ISVTEFDHLA DAVAAGEITM 550 560 570 580 590 600 NEVSDTNSAS GNTSLRANTN TDDTLTIDTT PAIRETMERL LIEHHQDSDS IHIPAWRALA 610 620 630 640 650 660 LSLGIKIESD NDTGIGDRMW SLTDLSKHAR KQDDGKSAIA AVNEVAPFQV RERAPTRIGS 670 680 690 700 710 720 RMGRPEKSED RDLSPAVHTL FPIGEAGGNQ RNLSDAAQSF GDNTERGQIS VQLGKRRCPY 730 740 750 760 770 780 CETVGFELQC AECGRHTEPQ FVCRECESVL SPDESGRVHC DRCERDVTSA EWQDIDLHQR 790 800 810 820 830 840 YRDALDRVDE RESSFEILKG VKGLTSSNKT PEPLEKGILR AKHGVSSFKD GTVRYDMTDL 850 860 870 880 890 900 PVTAVRPKEL DVTAAHFREL GYQTDINGNP LQFDDQLVEL KVQDIVLPDG AAEHMMKTAD 910 920 930 940 950 960 FVDDLLEQFY ELNQFYQIDE RDDLIGELVF GMAPHTSAAV VGRIVGFTSA AVGYAHPYFH 970 980 990 1000 1010 1020 AAKRRNCFHP ETKIWFRDTD NEWHHETIQT FVEDRLDDPE IDAVGTLVQE VDDNTDREIS 1030 1040 1050 1060 1070 1080 VPSIDDNGNE RLQSVTAVSK HRAPNHLVQI ETISGREITI TPDHEMHIFE QGNLVSKQAS 1090 1100 1110 1120 1130 1140 KITSGEYAVI PKRLQTISPS SHTPQHDLLR EFLTRDELTA DRLIIHTSDP VRLCNRVFPE 1150 1160 1170 1180 1190 1200 EVTSCKDAVE IMQNTACHLD KNKETLIGWL GEGRIPVALL RGFVETDEAL LMSIPDDVQI 1210 1220 1230 1240 1250 1260 GLRGEKVRID RHIGFTEELT SLLGYYAAAG IVHTQTNPIS YESAQQEQSR ITFYNIDTQT 1270 1280 1290 1300 1310 1320 QTDLLNALNS VFEIEPIQYN LDGEILGVPG ELIRRVFDTV FDVGTQPSHK RIPQALFDAS 1330 1340 1350 1360 1370 1380 ESHITSYLRC FFSTHDSLTT DTRDISATTV SREFKEDIIA ALRRLGITAE VTTQQSRSVP 1390 1400 1410 1420 1430 1440 EVLPDWYAID DITHHDADNS LNLTRSYVIS IASSDAVTLQ RDRQAQEQIK YDAQGLIANN 1450 1460 1470 1480 1490 1500 NAIHQSRQVT DGGRKDYITE PITDIEYVDA DIDYTYCLTV SETHSLIVND LSQKQCDGDE 1510 1520 1530 1540 1550 1560 DCVMLLMDGL LNFSREYLPD KRGGSVAADS RLVAVSPDDK IVFTTIEDFW KKLNTPIERN 1570 1580 1590 1600 1610 1620 GKFRKRTCVS EGWQTYAFDE NHEASLRPIE KAIRYTADES EQLRRITTQL GRSLDITDEH 1630 1640 1650 1660 1670 1680 SLFRYDDGIE EVAGDDLTAG DIIVAPRTLD VEVTQTTLDL SEYIHDNERC PSEQTGSGEL 1690 1700 1710 1720 1730 1740 NLASKSAISD SRNKETPGVT HNILPQRSKF TDEMTTLSPT AVGGLESEQN ETLRVGESTG 1750 1760 1770 1780 1790 1800 AIERYINVDD SFGWLLGQFI AQRSISTDAL TMTVHTAAEK HAERIVATSD SVFGIKPTVN 1810 1820 1830 1840 1850 1860 SIERGYEIVF PSVFDTIVSG LTAKEQSEPE QDVDHTHTDE IGIPECILHA PDDIVLSFLQ 1870 1880 1890 1900 1910 1920 GFILAENAQR KGNAASEASE MVSESETTVT LETPSVGVKD GLVFLCHRLG VITDISEKSG 1930 1940 1950 1960 1970 1980 EEYSVHFEES RYTVSIATEG KTNPLDQILN GERPTMPEGV SVPVPDALLT IHESIANSPH 1990 2000 2010 2020 2030 2040 IDQVIPDTVV QQETVSLETL QSLLTGLSTV DLPAQLEAKR DELTLLTEGD LSYLRVESVE 2050 2060 2070 2080 2090 2100 CVDYDGYLYD LQVGGEPVFT ANWLYAHNSM DAPLVMSSRI DPSEIDDEAH NMDIVRQYPR 2110 2120 2130 2140 2150 2160 EFYEATRRME DPDEWEEEVT IAEEYLDTDN EYTGFNHTHD TTDIAAGPDL SAYKTLDSMM 2170 2180 2190 2200 2210 2220 DKMDAQLELA RKLRAVDETD VAERVIEYHF LPDLIGNLRA FSRQQTRCLD CGESYRRMPL 2230 2240 2250 2260 2270 2280 TGECRECGGR VNLTVHEGSV NKYMDTAIHI AEEFDCREYT KQRLEVLERS LESIFEDDTN KQSGIADFM

References

[1]

"The genome of the square archaeon Haloquadratum walsbyi: life at the limits of water activity." Bolhuis H., Palm P., Wende A., Falb M., Rampp M., Rodriguez-Valera F., Pfeiffer F., Oesterhelt D. BMC Genomics 7:169-169(2006) [PubMed: 16820047] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AM180088 Genomic DNA. Translation: CAJ53557.1.
RefSeq	YP_659142.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4194482.
GenomeReviews	Gene locus HQ3461A in contig AM180088_GR.
KEGG	hwa:HQ3461A.
NMPDR	fig|362976.6.peg.2460.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q18ER3.
Enzyme and pathway databases
BioCyc	HWAL362976:HQ3461A-MON.
Family and domain databases
HAMAP	MF_00324. Divergent sequence. [Tree]
InterPro	IPR003586. Hedgehog_hint_C. IPR003587. Hedgehog_hint_N. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splicing_site. IPR004475. PolC_DP2. IPR016033. PolC_DP2_N. [Graphical view]
Pfam	PF03833. PolC_DP2. 1 hit. [Graphical view]
PRINTS	PR00379. INTEIN.
SMART	SM00305. HintC. 2 hits. SM00306. HintN. 2 hits. [Graphical view]
TIGRFAMs	TIGR01443. intein_Cterm. 2 hits. TIGR01445. intein_Nterm. 1 hit. TIGR00354. polC. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. False negative. PS50819. INTEIN_ENDONUCLEASE. 2 hits. PS50817. INTEIN_N_TER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DP2L_HALWD

Accession

Primary (citable) accession number: Q18ER3

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 10, 2007
Last sequence update:	July 25, 2006
Last modified:	November 25, 2008
This is version 23 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)