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Protein

DNA polymerase II large subunit

Gene

polC

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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).By similarity

Catalytic activityi

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, DNA-directed DNA polymerase, Exonuclease, Hydrolase, Multifunctional enzyme, Nuclease, Nucleotidyltransferase, Transferase
Biological processDNA replication

Enzyme and pathway databases

BioCyciPHOR70601:G1G39-115-MONOMER
BRENDAi2.7.7.7 5244

Protein family/group databases

MEROPSiN10.005

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase II large subunit (EC:2.7.7.7UniRule annotation)
Short name:
Pol II
Alternative name(s):
Exodeoxyribonuclease large subunitUniRule annotation (EC:3.1.11.1UniRule annotation)
Cleaved into the following chain:
Alternative name(s):
Pho pol II intein
Gene namesi
Name:polC
Ordered Locus Names:PH0121
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000073071 – 951DNA polymerase II large subunit, 1st partSequence analysisAdd BLAST951
ChainiPRO_0000007308952 – 1117Pho polC inteinSequence analysisAdd BLAST166
ChainiPRO_00000073091118 – 1431DNA polymerase II large subunit, 2nd partSequence analysisAdd BLAST314

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.Curated

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Proteomic databases

PRIDEiO57861

Interactioni

Subunit structurei

Heterodimer of a large subunit and a small subunit.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
itself3EBI-8553242,EBI-8553242

GO - Molecular functioni

  • identical protein binding Source: IntAct

Protein-protein interaction databases

MINTiO57861
STRINGi70601.PH0121

Structurei

Secondary structure

11431
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi47 – 55Combined sources9
Helixi60 – 71Combined sources12
Helixi73 – 86Combined sources14
Turni87 – 89Combined sources3
Helixi95 – 110Combined sources16
Turni111 – 113Combined sources3
Helixi117 – 121Combined sources5
Beta strandi122 – 129Combined sources8
Turni131 – 134Combined sources4
Beta strandi137 – 143Combined sources7
Helixi145 – 149Combined sources5
Helixi152 – 168Combined sources17
Helixi178 – 194Combined sources17
Helixi204 – 213Combined sources10
Beta strandi215 – 220Combined sources6
Helixi243 – 250Combined sources8
Turni251 – 256Combined sources6
Helixi257 – 267Combined sources11
Helixi273 – 284Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3O59X-ray2.20X1-297[»]
ProteinModelPortaliO57861
SMRiO57861
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the archaeal DNA polymerase II family.Curated

Phylogenomic databases

eggNOGiarCOG04447 Archaea
COG1372 LUCA
COG1933 LUCA
HOGENOMiHOG000286435
KOiK02322
OMAiKRRNCDG
OrthoDBiPOG093Z06CT

Family and domain databases

CDDicd00085 HNHc, 1 hit
HAMAPiMF_00324 DNApol_II_L_arch, 1 hit
InterProiView protein in InterPro
IPR003586 Hint_dom_C
IPR003587 Hint_dom_N
IPR036844 Hint_dom_sf
IPR003615 HNH_nuc
IPR030934 Intein_C
IPR006141 Intein_N
IPR004475 PolC_DP2
IPR016033 PolC_DP2_N
PANTHERiPTHR42210 PTHR42210, 1 hit
PfamiView protein in Pfam
PF03833 PolC_DP2, 1 hit
SMARTiView protein in SMART
SM00305 HintC, 1 hit
SM00306 HintN, 1 hit
SUPFAMiSSF51294 SSF51294, 1 hit
TIGRFAMsiTIGR01445 intein_Nterm, 1 hit
TIGR00354 polC, 1 hit
PROSITEiView protein in PROSITE
PS50818 INTEIN_C_TER, 1 hit
PS50817 INTEIN_N_TER, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O57861-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MELPKEMEEY FSMLQREIDK AYEIAKKARA QGKDPSLDVE IPQASDMAGR
60 70 80 90 100
VESLVGPPGV AERIRELVKE YGKEIAALKI VDEIIDGKFG DLGSKEKYAE
110 120 130 140 150
QAVRTALAIL TEGVVSAPIE GIASVKIKRN TWSDNSEYLA LYYAGPIRSS
160 170 180 190 200
GGTAQALSVL VGDYVRRKLG LDRFKPSEKH IERMVEEVDL YHRTVSRLQY
210 220 230 240 250
HPSPEEVRLA MRNIPIEITG EATDEVEVSH RDIPGVETNQ LRGGAILVLA
260 270 280 290 300
EGVLQKAKKL VKYIDKMGIE GWEWLKEFVE AKEKGEEIEE EGSAESTVEE
310 320 330 340 350
TKVEVDMGFY YSLYQKFKSE IAPNDKYAKE IIGGRPLFSD PSRNGGFRLR
360 370 380 390 400
YGRSRVSGFA TWGINPATMI LVDEFLAIGT QLKTERPGKG AVVTPVTTIE
410 420 430 440 450
GPIVKLKDGS VVKVDDYKLA LKIRDEVEEI LYLGDAVIAF GDFVENNQTL
460 470 480 490 500
LPANYCEEWW ILEFTKALNE IYEVELKPFE VNSSEDLEEA ADYLEVDIEF
510 520 530 540 550
LKELLKDPLR TKPPVELAIH FSEILGIPLH PYYTLYWNSV KPEQVEKLWR
560 570 580 590 600
VLKEHAHIDW DNFRGIKFAR RIVIPLEKLR DSKRALELLG LPHKVEGKNV
610 620 630 640 650
IVDYPWAAAL LTPLGNLEWE FRAKPLHTTI DIINENNEIK LRDRGISWIG
660 670 680 690 700
ARMGRPEKAK ERKMKPPVQV LFPIGLAGGS SRDIKKAAEE GKVAEVEIAL
710 720 730 740 750
FKCPKCGHVG PEHICPNCGT RKELIWVCPR CNAEYPESQA SGYNYTCPKC
760 770 780 790 800
NVKLKPYAKR KIKPSELLKR AMDNVKVYGI DKLKGVMGMT SGWKMPEPLE
810 820 830 840 850
KGLLRAKNDV YVFKDGTIRF DATDAPITHF RPREIGVSVE KLRELGYTHD
860 870 880 890 900
FEGNPLVSED QIVELKPQDI ILSKEAGKYL LKVAKFVDDL LEKFYGLPRF
910 920 930 940 950
YNAEKMEDLI GHLVIGLAPH TSAGIVGRII GFVDALVGYA HPYFHAAKRR
960 970 980 990 1000
NCFPGDTRIL VQINGTPQRV TLKELYELFD EEHYESMVYV RKKPKVDIKV
1010 1020 1030 1040 1050
YSFNPEEGKV VLTDIEEVIK APATDHLIRF ELELGSSFET TVDHPVLVYE
1060 1070 1080 1090 1100
NGKFVEKRAF EVREGNIIII IDESTLEPLK VAVKKIEFIE PPEDFVFSLN
1110 1120 1130 1140 1150
AKKYHTVIIN ENIVTHQCDG DEDAVMLLLD ALLNFSRYYL PEKRGGKMDA
1160 1170 1180 1190 1200
PLVITTRLDP REVDSEVHNM DIVRYYPLEF YEATYELKSP KELVGVIERV
1210 1220 1230 1240 1250
EDRLGKPEMY YGLKFTHDTD DIALGPKMSL YKQLGDMEEK VKRQLDVARR
1260 1270 1280 1290 1300
IRAVDEHKVA ETILNSHLIP DLRGNLRSFT RQEFRCVKCN TKFRRPPLDG
1310 1320 1330 1340 1350
KCPICGGKIV LTVSKGAIEK YLGTAKMLVT EYKVKNYTRQ RICLTERDID
1360 1370 1380 1390 1400
SLFETVFPET QLTLLVNPND ICQRIIMERT GGSKKSGLLE NFANGYNKGK
1410 1420 1430
KEEMPKKQRK KEQEKSKKRK VISLDDFFSR K
Length:1,431
Mass (Da):162,928
Last modified:April 27, 2001 - v2
Checksum:i59B73A48868B6298
GO

Sequence cautioni

The sequence BAA29190 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA Translation: BAA29190.1 Different initiation.
PIRiG71232
RefSeqiWP_048053037.1, NC_000961.1

Genome annotation databases

EnsemblBacteriaiBAA29190; BAA29190; BAA29190
GeneIDi1444018
KEGGipho:PH0121

Similar proteinsi

Entry informationi

Entry nameiDP2L_PYRHO
AccessioniPrimary (citable) accession number: O57861
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: April 27, 2001
Last modified: May 23, 2018
This is version 117 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

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