P77933 (DPOL_THEKO) Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)(Pyrococcus kodakaraensis (strain KOD1))

DNA polymerase UniProtKBInterProSTRINGInteractive Modelling

1671 aa; Sequence (Fasta)

Molecule Processing
DNA polymerase, 1st part
Endonuclease PI-PkoI
DNA polymerase, 2nd part
Endonuclease PI-PkoII
DNA polymerase, 3rd part

Sequence Features

Add
 788-802
 1403-1406
 22-129DNA-directed DNA polymerase, family B, exonuclease domain
IPR006133PF03104
 130-278DNA-directed DNA polymerase, family B, exonuclease domain
IPR006133PF03104
 623-702Homing endonuclease, LAGLIDADG
IPR004860PF14528
 762-853DNA-directed DNA polymerase, family B, multifunctional domain
IPR006134PF00136
 975-1123DNA polymerase II intein domain IV
IPR041005PF18714
 1128-1183Homing endonuclease, LAGLIDADG
IPR004860PF14528
 1222-1277Homing endonuclease, LAGLIDADG
IPR004860PF14528
 1388-1643DNA-directed DNA polymerase, family B, multifunctional domain
IPR006134PF00136

Sequence Alignments

Endonuclease PI-PkoII 852-1388; PRO_0000007328

DescriptionOligo-stateLigandsStructureRange
Crystal structure of intein homing endonuclease IImonomer 8×SO4; 4×GOL;2cw8 852-1388
Assess
Crystal structure of intein homing endonuclease IImonomer 3×SO4;2cw7 852-1388
Assess

Experimental structures

DescriptionOligo-stateLigandsStructureRange
Crystal structure of family B DNA polymerase from hyperthermophilic archaeon pyrococcus kodakaraens…monomer 1wns1-1655
Assess
KOD DNA pol in a closed ternary complex with 7-deaza-7-(2-(2-hydroxyethoxy)-N-(prop-2-yn-1-yl)aceta…monomer 1×MN; 2×MG; 7×EDO; 1×HHZ; 2×NO3; 1×SO4;6q4t1-1654
Assess
Closed, ternary structure of KOD DNA polymerasemonomer 2×MN; 4×EDO; 1×MG; 3×GOL; 1×DTP;5omf1-1653
Assess
KOD Polymerase in binary complex with dsDNAmonomer 1×NCO; 2×EDO; 1×MG;4k8z1-1653
Assess

Homology models

Oligo-stateQMEANTemplateRangeSeq id (%)Ligands
monomer -0.44 1wns.1.A1-407
99.75
Assess
monomer -3.15 5vu8.1.A1381-1656
97.25
Assess