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6ud6

Spectroscopic and structural characterization of a genetically encoded direct sensor for protein-ligand interactions

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

Streptavidin

Streptomyces avidinii

UniProt P22629

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 GLYCEROL × 7 CHLORIDE ION × 2 water × 2 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 4 GLYCEROL × 14 CHLORIDE ION × 4 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3rdm 3rdo 3rdq 3rds 3rdu 3re5 3re6 5n8t 7dy0 7dy0 7efc 7efc

14 assemblies; showing the first 12

Homodimer
1mm9 1moy 1swg 1swg 3rdx 5cse 6s4q 6s50 6uc3 6ud1 6ud6 8xg4

17 assemblies; showing the first 12

Homotetramer
1df8 1i9h 1kff 1kl4 1lcv 1lcw 1lcz 1mep 1mk5 1mm9 1mm9 1moy

262 assemblies; showing the first 12

Other homooligomers
1df8 1lcv 1lcz 1sre 1srg 1sri 2izc 2izd 2ize 2rth 2rti 2rtn

16 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1hqq 1hxl 1hxz 1hy2 1kl3 1kl5 1pts 1pts 1rst 1rsu 1sld 1sle

60 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name SAV_STRAV
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–128； UniProt 37–163 Author chain B； PDBConstruct 2–128； UniProt 37–163

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_id6ud6
Deposition date deposition_date2019-09-18
Structure title titleSpectroscopic and structural characterization of a genetically encoded direct sensor for protein-ligand interactions
Keywords keywords;unnatural amino acid, non-canonical amino acid, fluorescence, biosensor, small molecule biosensor, ligand detection, FLUORESCENT PROTEIN ;; FLUORESCENT 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.

6ud6__assembly_1__model_1

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

Download this curve (.dat)

6ud6__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.

6ud6__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）18.29 Å
Rg (electron density)17.17 Å
Total Rg18.23 Å
Atom count1872
Residues239
Excluded volume32134 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6ud6__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 6ud6__assembly_2__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 (4)

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6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd6ud6a_
Class classb — All beta proteins
Fold Fold foldb.61 — Streptavidin-like
Superfamily Superfamily superfamilyb.61.1 — Avidin/streptavidin
Family Family familyb.61.1.1 — Avidin/streptavidin
Domain ID domain_idd6ud6b_
Class classb — All beta proteins
Fold Fold foldb.61 — Streptavidin-like
Superfamily Superfamily superfamilyb.61.1 — Avidin/streptavidin
Family Family familyb.61.1.1 — Avidin/streptavidin
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7. Citations (1)