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2ypo

3-deoxy-D-arabino-heptulosonate 7-phosphate synthase with phenylalanine bound in only one site

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

PHOSPHO-2-DEHYDRO-3-DEOXYHEPTONATE ALDOLASE AROG

MYCOBACTERIUM TUBERCULOSIS

UniProt O53512

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 4 MANGANESE (II) ION × 4 SULFATE ION × 10 GLYCEROL × 12 PHENYLALANINE × 4 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
2b7o

1 assemblies

Homotetramer
2ypo 2ypp 2ypq 3kgf 3nud 3nue 3nv8 3pfp 3rzi 5ckv

10 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
2w19 2w1a 5ckx

3 assemblies

View Construct and Data Evidence
UniProt name AROG_MYCTU
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–462； UniProt 1–462 Author chain B； PDBConstruct 1–462； UniProt 1–462

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_id2ypo
Deposition date deposition_date2012-10-31
Structure title title3-deoxy-D-arabino-heptulosonate 7-phosphate synthase with phenylalanine bound in only one site
Keywords keywordsSHIKIMATE PATHWAY, TRANSFERASE, AROMATIC AMINO ACID BIOSYNTH ALLOSTERY; TRANSFERASE
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.

2ypo__assembly_1__model_1

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

Download this curve (.dat)

2ypo__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2ypo__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）39.93 Å
Rg (electron density)39.13 Å
Total Rg39.53 Å
Atom count14248
Residues1830
Excluded volume251360 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2ypo__assembly_1__model_1 tetrameric （4） 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 (6)

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6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2ypoa_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.10 — Aldolase
Family Family familyc.1.10.8 — Class-II DAHP synthetase
Domain ID domain_idd2ypob_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.10 — Aldolase
Family Family familyc.1.10.8 — Class-II DAHP synthetase
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7. Citations (1)