1xd6

Crystal structures of novel monomeric monocot mannose-binding lectins from Gastrodia elata

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

gastrodianin-4

OrganismNot specified

UniProt Q1M0Y9

State in the Current Structure

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

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name Q1M0Y9_9ASPA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–112; UniProt 29–140

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_id1xd6
Deposition date deposition_date2004-09-04
Structure title titleCrystal structures of novel monomeric monocot mannose-binding lectins from Gastrodia elata
Keywords keywordsmonocot mannose-binding lectin, monomer, homogeneous beta-sheet, antifungal protein; ANTIFUNGAL PROTEIN
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.

1xd6__assembly_1__model_1

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

Download this curve (.dat)

1xd6__assembly_1__model_1 | I(q)

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

1xd6__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)14.69 Å
Rg (electron density)13.12 Å
Total Rg14.29 Å
Atom count851
Residues110
Excluded volume14792 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1xd6__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 (3)

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6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1xd6a_
Class classb — All beta proteins
Fold Fold foldb.78 — beta-Prism II
Superfamily Superfamily superfamilyb.78.1 — alpha-D-mannose-specific plant lectins
Family Family familyb.78.1.1 — alpha-D-mannose-specific plant lectins

CATH v4.4 (1 domains)

Domain ID domain_id1xd6A00
Class class2 — Mainly Beta
Architecture architecture90 — Orthogonal Prism
Topology topology10 — Agglutinin, subunit A
Homologous superfamily homologous superfamily10 — Bulb-type lectin domain
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7. Citations (1)