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1ixy

Ternary complex of T4 phage BGT with UDP and a 13 mer DNA duplex

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

DNA beta-glucosyltransferase

Enterobacteria phage T4

UniProt P04547

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 5'-D(*GP*AP*TP*AP*CP*TP*3DRP*AP*GP*AP*TP*AP*G)-3' × 1 5'-D(*CP*TP*AP*TP*CP*TP*GP*AP*GP*TP*AP*TP*C)-3' × 1 MAGNESIUM ION × 1 URIDINE-5'-DIPHOSPHATE × 1 (4S)-2-METHYL-2,4-PENTANEDIOL × 2 water × 3 Consistent with all polymers
2 Protein–DNA Monomer Protein 1 DNA 2 5'-D(*GP*AP*TP*AP*CP*TP*3DRP*AP*GP*AP*TP*AP*G)-3' × 1 5'-D(*CP*TP*AP*TP*CP*TP*GP*AP*GP*TP*AP*TP*C)-3' × 1 MAGNESIUM ION × 2 URIDINE-5'-DIPHOSPHATE × 1 (4S)-2-METHYL-2,4-PENTANEDIOL × 1 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1bgt 1bgu 1c3j 1j39 1jej 1jg6 1jg7 1jiu 1jiv 1jix 1nvk 1nzd

16 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ixy 1ixy 1m5r 1m5r 1sxp 1sxq 1sxq

7 assemblies

View Construct and Data Evidence
UniProt name GSTB_BPT4
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–351； UniProt 1–351 Author chain B； PDBConstruct 1–351； UniProt 1–351

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_id1ixy
Deposition date deposition_date2002-07-09
Structure title titleTernary complex of T4 phage BGT with UDP and a 13 mer DNA duplex
Keywords keywordsprotein-dna complex, base-flipping, abasic site, TRANSFERASE-DNA COMPLEX; TRANSFERASE/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.

1ixy__assembly_1__model_1

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

Download this curve (.dat)

1ixy__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1ixy__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）22.41 Å
Rg (electron density)21.48 Å
Total Rg22.33 Å
Atom count3430
Residues376
Excluded volume60046 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1ixy__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1ixy__assembly_2__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 (7)

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6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1ixya_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.87 — UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily Superfamily superfamilyc.87.1 — UDP-Glycosyltransferase/glycogen phosphorylase
Family Family familyc.87.1.1 — beta-Glucosyltransferase (DNA-modifying)
Domain ID domain_idd1ixyb_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.87 — UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily Superfamily superfamilyc.87.1 — UDP-Glycosyltransferase/glycogen phosphorylase
Family Family familyc.87.1.1 — beta-Glucosyltransferase (DNA-modifying)

CATH v4.4 (4 domains)

Domain ID domain_id1ixyA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2000 — Glycogen Phosphorylase B;
Domain ID domain_id1ixyA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2000 — Glycogen Phosphorylase B;
Domain ID domain_id1ixyB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2000 — Glycogen Phosphorylase B;
Domain ID domain_id1ixyB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2000 — Glycogen Phosphorylase B;
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7. Citations (1)