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Q9V2F4 (DP2L_PYRAB) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 88. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA polymerase II large subunit

Short name=Pol II
EC=2.7.7.7

Cleaved into the following chain:

  1. Pab polC intein
    Alternative name(s):
    Pab pol II intein
Gene names
Name:polC
Ordered Locus Names:PYRAB01200
ORF Names:PAB2404
OrganismPyrococcus abyssi (strain GE5 / Orsay) [Complete proteome] [HAMAP]
Taxonomic identifier272844 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus

Protein attributes

Sequence length1455 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

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. HAMAP-Rule MF_00324

Catalytic activity

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). HAMAP-Rule MF_00324

Degradation of single-stranded DNA. It acts progressively in a 3'- to 5'-direction, releasing nucleoside 5'-phosphates. HAMAP-Rule MF_00324

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. HAMAP-Rule MF_00324

Sequence similarities

Belongs to the archaeal DNA polymerase II family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 954954DNA polymerase II large subunit, 1st part Potential
PRO_0000007304
Chain955 – 1139185Pab polC intein Potential
PRO_0000007305
Chain1140 – 1455316DNA polymerase II large subunit, 2nd part Potential
PRO_0000007306

Secondary structure

...................................... 1455
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9V2F4 [UniParc].

Last modified May 1, 2000. Version 1.
Checksum: BB092E7BB2FE0D21

FASTA1,455165,711
        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 

« Hide

References

« Hide 'large scale' 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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: GE5 / Orsay.
[2]"Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638."
Gao J., Wang J.
Curr. Microbiol. 64:118-129(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: GE5 / Orsay.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ248283 Genomic DNA. Translation: CAB49044.1.
HE613800 Genomic DNA. Translation: CCE69496.1.
PIRE75199.
RefSeqNP_125813.1. NC_000868.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2LCJNMR-A955-1139[»]
ProteinModelPortalQ9V2F4.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING272844.PAB2404.

Protein family/group databases

MEROPSN10.005.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaCAB49044; CAB49044; PAB2404.
GeneID1495007.
KEGGpab:PAB2404.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1933.
HOGENOMHOG000286435.
KOK02322.
OMARNCDGDE.

Family and domain databases

Gene3D2.170.16.10. 1 hit.
HAMAPMF_00324. DNApol_II_L_arch.
InterProIPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR006141. Intein_splice_site.
IPR004475. PolC_DP2.
IPR016033. PolC_DP2_N.
[Graphical view]
PfamPF03833. PolC_DP2. 1 hit.
[Graphical view]
SMARTSM00306. HintN. 1 hit.
[Graphical view]
SUPFAMSSF51294. SSF51294. 1 hit.
TIGRFAMsTIGR01445. intein_Nterm. 1 hit.
TIGR00354. polC. 1 hit.
PROSITEPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDP2L_PYRAB
AccessionPrimary (citable) accession number: Q9V2F4
Secondary accession number(s): G8ZFV5
Entry history
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: May 1, 2000
Last modified: June 11, 2014
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Intein-containing proteins

List of intein-containing protein entries