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P56689

- DPOL_THEGO

UniProt

P56689 - DPOL_THEGO

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Protein

DNA polymerase

Gene

pol

Organism
Thermococcus gorgonarius
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' exonuclease activity.

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. exonuclease activity Source: UniProtKB-KW
  4. nucleotide binding Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Exonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase (EC:2.7.7.7)
Alternative name(s):
TO POL
Gene namesi
Name:pol
Synonyms:polA
OrganismiThermococcus gorgonarius
Taxonomic identifieri71997 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 773773DNA polymerasePRO_0000046488Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi428 ↔ 442
Disulfide bondi506 ↔ 509

Keywords - PTMi

Disulfide bond

Structurei

Secondary structure

1
773
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 109Combined 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 – 10211Combined sources
Beta strandi106 – 1116Combined sources
Helixi116 – 1238Combined sources
Beta strandi137 – 1448Combined sources
Beta strandi148 – 1514Combined sources
Beta strandi157 – 1648Combined sources
Beta strandi167 – 1748Combined sources
Beta strandi181 – 1833Combined sources
Helixi187 – 20115Combined sources
Beta strandi204 – 2107Combined sources
Helixi211 – 2133Combined sources
Helixi215 – 22511Combined sources
Beta strandi233 – 2364Combined sources
Beta strandi240 – 2434Combined sources
Beta strandi245 – 2517Combined sources
Beta strandi255 – 2595Combined sources
Helixi260 – 2678Combined sources
Helixi275 – 2839Combined sources
Helixi292 – 30110Combined sources
Helixi305 – 33733Combined sources
Helixi341 – 3455Combined sources
Helixi349 – 36315Combined sources
Helixi374 – 3796Combined sources
Beta strandi395 – 40713Combined sources
Helixi408 – 4158Combined sources
Turni420 – 4223Combined sources
Beta strandi429 – 4335Combined sources
Turni435 – 4373Combined sources
Beta strandi440 – 4423Combined sources
Helixi448 – 46922Combined sources
Helixi473 – 49018Combined sources
Helixi493 – 4986Combined sources
Helixi507 – 53024Combined sources
Beta strandi535 – 54713Combined sources
Helixi553 – 56816Combined sources
Beta strandi577 – 59014Combined sources
Beta strandi593 – 5975Combined sources
Beta strandi603 – 6075Combined sources
Beta strandi613 – 6153Combined sources
Helixi617 – 63115Combined sources
Helixi636 – 65116Combined sources
Helixi657 – 6593Combined sources
Beta strandi662 – 6654Combined sources
Helixi670 – 6723Combined sources
Beta strandi675 – 6784Combined sources
Helixi679 – 68911Combined sources
Beta strandi697 – 7048Combined sources
Beta strandi707 – 7093Combined sources
Helixi710 – 7134Combined sources
Beta strandi714 – 7163Combined sources
Helixi717 – 7193Combined sources
Turni722 – 7243Combined sources
Helixi729 – 7357Combined sources
Helixi738 – 7403Combined sources
Helixi742 – 7465Combined sources
Turni747 – 7493Combined sources
Helixi752 – 7543Combined sources
Beta strandi758 – 7603Combined sources
Helixi766 – 7694Combined sources

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TGOX-ray2.50A1-773[»]
2VWJX-ray2.78A1-773[»]
2VWKX-ray2.60A1-773[»]
2XHBX-ray2.72A1-757[»]
ProteinModelPortaliP56689.
SMRiP56689. Positions 1-773.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP56689.

Family & Domainsi

Sequence similaritiesi

Belongs to the DNA polymerase type-B family.Curated

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.

P56689-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MILDTDYITE DGKPVIRIFK KENGEFKIDY DRNFEPYIYA LLKDDSAIED
60 70 80 90 100
VKKITAERHG TTVRVVRAEK VKKKFLGRPI EVWKLYFTHP QDVPAIRDKI
110 120 130 140 150
KEHPAVVDIY EYDIPFAKRY LIDKGLIPME GDEELKMLAF DIETLYHEGE
160 170 180 190 200
EFAEGPILMI SYADEEGARV ITWKNIDLPY VDVVSTEKEM IKRFLKVVKE
210 220 230 240 250
KDPDVLITYN GDNFDFAYLK KRSEKLGVKF ILGREGSEPK IQRMGDRFAV
260 270 280 290 300
EVKGRIHFDL YPVIRRTINL PTYTLEAVYE AIFGQPKEKV YAEEIAQAWE
310 320 330 340 350
TGEGLERVAR YSMEDAKVTY ELGKEFFPME AQLSRLVGQS LWDVSRSSTG
360 370 380 390 400
NLVEWFLLRK AYERNELAPN KPDERELARR RESYAGGYVK EPERGLWENI
410 420 430 440 450
VYLDFRSLYP SIIITHNVSP DTLNREGCEE YDVAPQVGHK FCKDFPGFIP
460 470 480 490 500
SLLGDLLEER QKVKKKMKAT IDPIEKKLLD YRQRAIKILA NSFYGYYGYA
510 520 530 540 550
KARWYCKECA ESVTAWGRQY IETTIREIEE KFGFKVLYAD TDGFFATIPG
560 570 580 590 600
ADAETVKKKA KEFLDYINAK LPGLLELEYE GFYKRGFFVT KKKYAVIDEE
610 620 630 640 650
DKITTRGLEI VRRDWSEIAK ETQARVLEAI LKHGDVEEAV RIVKEVTEKL
660 670 680 690 700
SKYEVPPEKL VIYEQITRDL KDYKATGPHV AVAKRLAARG IKIRPGTVIS
710 720 730 740 750
YIVLKGSGRI GDRAIPFDEF DPAKHKYDAE YYIENQVLPA VERILRAFGY
760 770
RKEDLRYQKT RQVGLGAWLK PKT
Length:773
Mass (Da):89,812
Last modified:July 15, 1999 - v1
Checksum:iF67AF04E875FBE44
GO

Cross-referencesi

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1TGO X-ray 2.50 A 1-773 [» ]
2VWJ X-ray 2.78 A 1-773 [» ]
2VWK X-ray 2.60 A 1-773 [» ]
2XHB X-ray 2.72 A 1-757 [» ]
ProteinModelPortali P56689.
SMRi P56689. Positions 1-773.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Miscellaneous databases

EvolutionaryTracei P56689.

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

  1. "Crystal structure of a thermostable type B DNA polymerase from Thermococcus gorgonarius."
    Hopfner K.-P., Eichinger A., Engh R.A., Laue F., Ankenbauer W., Huber R., Angerer B.
    Proc. Natl. Acad. Sci. U.S.A. 96:3600-3605(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).

Entry informationi

Entry nameiDPOL_THEGO
AccessioniPrimary (citable) accession number: P56689
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: July 15, 1999
Last modified: October 29, 2014
This is version 76 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, Multifunctional enzyme

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