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P0CL77

- DPOL_PYRAB

UniProt

P0CL77 - DPOL_PYRAB

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Protein

DNA polymerase 1

Gene

polI

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli

Functioni

Catalytic activityi

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA-directed DNA polymerase activity Source: UniProtKB-KW
  3. nucleotide binding Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase 1 (EC:2.7.7.7)
Alternative name(s):
Pab polymerase
Gene namesi
Name:polI
Synonyms:pol
Ordered Locus Names:PYRAB17200
ORF Names:PAB1128
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000000810: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 771771DNA polymerase 1PRO_0000407283Add
BLAST

Proteomic databases

PRIDEiP0CL77.

Structurei

Secondary structure

771
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi1 – 1010Combined sources
Beta strandi13 – 2210Combined sources
Beta strandi25 – 328Combined sources
Beta strandi37 – 448Combined sources
Helixi45 – 473Combined sources
Helixi48 – 514Combined sources
Beta strandi55 – 584Combined sources
Beta strandi61 – 644Combined sources
Beta strandi67 – 759Combined sources
Beta strandi78 – 869Combined sources
Helixi92 – 10110Combined sources
Beta strandi106 – 1116Combined sources
Helixi116 – 1238Combined sources
Beta strandi137 – 1448Combined sources
Beta strandi157 – 1648Combined sources
Beta strandi167 – 1748Combined sources
Beta strandi181 – 1833Combined sources
Helixi187 – 20115Combined sources
Beta strandi204 – 2107Combined sources
Turni211 – 2144Combined sources
Helixi215 – 22511Combined sources
Beta strandi240 – 2445Combined sources
Beta strandi247 – 2515Combined sources
Beta strandi255 – 2595Combined sources
Helixi260 – 2678Combined sources
Helixi275 – 2839Combined sources
Helixi292 – 30110Combined sources
Helixi305 – 33733Combined sources
Helixi341 – 3455Combined sources
Helixi349 – 36416Combined sources
Helixi374 – 3818Combined sources
Beta strandi398 – 4058Combined sources
Helixi407 – 4093Combined sources
Helixi410 – 4167Combined sources
Turni421 – 4233Combined sources
Beta strandi430 – 4345Combined sources
Turni436 – 4383Combined sources
Beta strandi441 – 4433Combined sources
Helixi449 – 46921Combined sources
Helixi474 – 49118Combined sources
Helixi494 – 4985Combined sources
Helixi508 – 53124Combined sources
Beta strandi535 – 5395Combined sources
Beta strandi541 – 5477Combined sources
Helixi553 – 57018Combined sources
Beta strandi578 – 59013Combined sources
Beta strandi593 – 5975Combined sources
Beta strandi603 – 6075Combined sources
Helixi617 – 63115Combined sources
Helixi636 – 65116Combined sources
Helixi657 – 6604Combined sources
Beta strandi662 – 6654Combined sources
Helixi670 – 6723Combined sources
Helixi678 – 68811Combined sources
Beta strandi698 – 7058Combined sources
Helixi710 – 7123Combined sources
Beta strandi714 – 7163Combined sources
Helixi717 – 7193Combined sources
Turni722 – 7243Combined sources
Helixi729 – 7346Combined sources
Helixi737 – 74610Combined sources
Turni747 – 7493Combined sources
Helixi752 – 7543Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4FLTX-ray2.90A1-771[»]
4FLVX-ray2.70A1-771[»]
4FLWX-ray2.15A1-771[»]
4FLXX-ray2.90A1-771[»]
4FLYX-ray2.30A1-771[»]
4FLZX-ray3.20A1-771[»]
4FM0X-ray3.12A1-771[»]
4FM1X-ray3.00A1-771[»]
4FM2X-ray2.90A1-771[»]
ProteinModelPortaliP0CL77.
SMRiP0CL77. Positions 1-770.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DNA polymerase type-B family.Curated

Phylogenomic databases

HOGENOMiHOG000222650.
KOiK02319.
OMAiIADEFNQ.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
3.90.1600.10. 2 hits.
InterProiIPR006172. 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.
IPR023211. DNA_pol_palm_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamiPF00136. DNA_pol_B. 1 hit.
PF03104. DNA_pol_B_exo1. 2 hits.
[Graphical view]
PRINTSiPR00106. DNAPOLB.
SMARTiSM00486. POLBc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS00116. DNA_POLYMERASE_B. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0CL77-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MIIDADYITE DGKPIIRIFK KEKGEFKVEY DRTFRPYIYA LLKDDSAIDE
60 70 80 90 100
VKKITAERHG KIVRITEVEK VQKKFLGRPI EVWKLYLEHP QDVPAIREKI
110 120 130 140 150
REHPAVVDIF EYDIPFAKRY LIDKGLTPME GNEELTFLAV DIETLYHEGE
160 170 180 190 200
EFGKGPIIMI SYADEEGAKV ITWKSIDLPY VEVVSSEREM IKRLVKVIRE
210 220 230 240 250
KDPDVIITYN GDNFDFPYLL KRAEKLGIKL PLGRDNSEPK MQRMGDSLAV
260 270 280 290 300
EIKGRIHFDL FPVIRRTINL PTYTLEAVYE AIFGKSKEKV YAHEIAEAWE
310 320 330 340 350
TGKGLERVAK YSMEDAKVTF ELGKEFFPME AQLARLVGQP VWDVSRSSTG
360 370 380 390 400
NLVEWFLLRK AYERNELAPN KPDEREYERR LRESYEGGYV KEPEKGLWEG
410 420 430 440 450
IVSLDFRSLY PSIIITHNVS PDTLNRENCK EYDVAPQVGH RFCKDFPGFI
460 470 480 490 500
PSLLGNLLEE RQKIKKRMKE SKDPVEKKLL DYRQRAIKIL ANSYYGYYGY
510 520 530 540 550
AKARWYCKEC AESVTAWGRQ YIDLVRRELE SRGFKVLYID TDGLYATIPG
560 570 580 590 600
AKHEEIKEKA LKFVEYINSK LPGLLELEYE GFYARGFFVT KKKYALIDEE
610 620 630 640 650
GKIVTRGLEI VRRDWSEIAK ETQAKVLEAI LKHGNVDEAV KIVKEVTEKL
660 670 680 690 700
SKYEIPPEKL VIYEQITRPL SEYKAIGPHV AVAKRLAAKG VKVKPGMVIG
710 720 730 740 750
YIVLRGDGPI SKRAIAIEEF DPKKHKYDAE YYIENQVLPA VERILRAFGY
760 770
RKEDLKYQKT KQVGLGAWLK F
Length:771
Mass (Da):89,496
Last modified:April 5, 2011 - v1
Checksum:i110A87045A8A5522
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248288 Genomic DNA. Translation: CAB50625.1.
HE613800 Genomic DNA. Translation: CCE71192.1.
PIRiC75023.
RefSeqiNP_127396.1. NC_000868.1.
WP_010868838.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB50625; CAB50625; PAB1128.
GeneIDi1496021.
KEGGipab:PAB1128.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248288 Genomic DNA. Translation: CAB50625.1 .
HE613800 Genomic DNA. Translation: CCE71192.1 .
PIRi C75023.
RefSeqi NP_127396.1. NC_000868.1.
WP_010868838.1. NC_000868.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4FLT X-ray 2.90 A 1-771 [» ]
4FLV X-ray 2.70 A 1-771 [» ]
4FLW X-ray 2.15 A 1-771 [» ]
4FLX X-ray 2.90 A 1-771 [» ]
4FLY X-ray 2.30 A 1-771 [» ]
4FLZ X-ray 3.20 A 1-771 [» ]
4FM0 X-ray 3.12 A 1-771 [» ]
4FM1 X-ray 3.00 A 1-771 [» ]
4FM2 X-ray 2.90 A 1-771 [» ]
ProteinModelPortali P0CL77.
SMRi P0CL77. Positions 1-770.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P0CL77.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB50625 ; CAB50625 ; PAB1128 .
GeneIDi 1496021.
KEGGi pab:PAB1128.

Phylogenomic databases

HOGENOMi HOG000222650.
KOi K02319.
OMAi IADEFNQ.

Family and domain databases

Gene3Di 3.30.420.10. 1 hit.
3.90.1600.10. 2 hits.
InterProi 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.
IPR023211. DNA_pol_palm_dom.
IPR012337. RNaseH-like_dom.
[Graphical view ]
Pfami PF00136. DNA_pol_B. 1 hit.
PF03104. DNA_pol_B_exo1. 2 hits.
[Graphical view ]
PRINTSi PR00106. DNAPOLB.
SMARTi SM00486. POLBc. 1 hit.
[Graphical view ]
SUPFAMi SSF53098. SSF53098. 1 hit.
PROSITEi PS00116. DNA_POLYMERASE_B. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. 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.

Entry informationi

Entry nameiDPOL_PYRAB
AccessioniPrimary (citable) accession number: P0CL77
Secondary accession number(s): G8ZK85, P77916, P77932
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 5, 2011
Last sequence update: April 5, 2011
Last modified: November 26, 2014
This is version 28 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3