1prz

Crystal structure of pseudouridine synthase RluD catalytic module

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

Ribosomal large subunit pseudouridine synthase D

Escherichia coli

UniProt Q8X9F0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RLUD_ECO57
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–252; UniProt 75–326

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_id1prz
Deposition date deposition_date2003-06-20
Structure title titleCrystal structure of pseudouridine synthase RluD catalytic module
Keywords keywordsPseudouridine synthase, RluD, Montreal-Kingston Bacterial Structural Genomics Initiative, BSGI, Structural Genomics, LYASE; LYASE
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.

1prz__assembly_1__model_1

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

Download this curve (.dat)

1prz__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.

1prz__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)20.24 Å
Rg (electron density)19.60 Å
Total Rg20.20 Å
Atom count2021
Residues242
Excluded volume35977 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1prz__assembly_1__model_1 monomeric (1) 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 (2)

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6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1prza_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.265 — Pseudouridine synthase
Superfamily Superfamily superfamilyd.265.1 — Pseudouridine synthase
Family Family familyd.265.1.3 — Pseudouridine synthase RsuA/RluD

CATH v4.4 (2 domains)

Domain ID domain_id1przA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2350 — Pseudouridine synthase
Homologous superfamily homologous superfamily10 — Pseudouridine synthase
Domain ID domain_id1przA02
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily230 —
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7. Citations (1)