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5w6q

Structural basis for recognition of artificial DNA by an evolved KlenTaq variant

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA polymerase I, thermostable

Thermus aquaticus

UniProt P19821

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Monomer Protein 1 DNA 2 ;DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(1W5))-3') ; × 1 ;DNA (5'-D(P*GP*(1WA)P*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') ; × 1 water × 3 Consistent with all polymers
2 Protein–DNA Monomer Protein 1 DNA 2 ;DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(1W5))-3') ; × 1 ;DNA (5'-D(P*GP*(1WA)P*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') ; × 1 water × 3 Consistent with all polymers
3 Protein–DNA Monomer Protein 1 DNA 2 ;DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(1W5))-3') ; × 1 ;DNA (5'-D(P*GP*(1WA)P*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') ; × 1 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1jxe 1ktq 1taq 5ktq 8xjr

5 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1bgx 1qss 1qsy 1qtm 1tau 2ktq 3ktq 3lwl 3lwm 3m8r 3m8s 3ojs

79 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DPO1_THEAQ
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–540； UniProt 293–832 Author chain C； PDBConstruct 1–540； UniProt 293–832 Author chain G； PDBConstruct 1–540； UniProt 293–832

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id5w6q
Deposition date deposition_date2017-06-16
Structure title titleStructural basis for recognition of artificial DNA by an evolved KlenTaq variant
Keywords keywords;Protein-DNA, AEGIS, unnatural base pair, host-guest system, transferase-dna complex, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA complex ;; DNA BINDING PROTEIN/DNA
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

5w6q__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

5w6q__assembly_1__model_1 | I(q)

10-2 10-1 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5w6q__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）25.76 Å
Rg (electron density)25.03 Å
Total Rg25.76 Å
Atom count4575
Residues538
Excluded volume79893 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5w6q__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5w6q__assembly_2__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 5w6q__assembly_3__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

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6. Fold Classification (SCOP + CATH) 9 domains

CATH v4.4 (9 domains)

Domain ID domain_id5w6qA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily10 — Ribonuclease H-like superfamily/Ribonuclease H
Domain ID domain_id5w6qA02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1060 — Taq DNA Polymerase; Chain T, domain 4
Homologous superfamily homologous superfamily10 — Taq DNA Polymerase; Chain T, domain 4
Domain ID domain_id5w6qA03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id5w6qC01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily10 — Ribonuclease H-like superfamily/Ribonuclease H
Domain ID domain_id5w6qC02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1060 — Taq DNA Polymerase; Chain T, domain 4
Homologous superfamily homologous superfamily10 — Taq DNA Polymerase; Chain T, domain 4
Domain ID domain_id5w6qC03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id5w6qG01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily10 — Ribonuclease H-like superfamily/Ribonuclease H
Domain ID domain_id5w6qG02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1060 — Taq DNA Polymerase; Chain T, domain 4
Homologous superfamily homologous superfamily10 — Taq DNA Polymerase; Chain T, domain 4
Domain ID domain_id5w6qG03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
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7. Citations (1)