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6qd6

Molecular scaffolds expand the nanobody toolkit for cryo-EM applications: crystal structure of Mb-cHopQ-Nb207

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

Mb-cHopQ-Nb207,Outer membrane protein,Mb-cHopQ-Nb207,Outer membrane protein,Mb-cHopQ-Nb207

Helicobacter pylori

UniProt B5Z8H1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 CHLORIDE ION × 1 water × 1 Consistent with protein count
10 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
2 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
3 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
4 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
5 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
6 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
7 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
8 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count
9 Protein monomer Monomer Protein 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
5lp2 5lp2 5lp2 5lp2 6qd6 6qd6 6qd6 6qd6 6qd6 6qd6 6qd6 6qd6

22 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
6gbg 6qfa 7qha 8b01 9ffl 9ffm 9ffn 9ffo 9ffp 9ffq 9ffr 9ffs

19 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name B5Z8H1_HELPG
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 14–236； UniProt 227–449 Author chain A； PDBConstruct 250–421； UniProt 50–221 Author chain B； PDBConstruct 14–236； UniProt 227–449 Author chain B； PDBConstruct 250–421； UniProt 50–221 Author chain C； PDBConstruct 14–236； UniProt 227–449 Author chain C； PDBConstruct 250–421； UniProt 50–221 Author chain D； PDBConstruct 14–236； UniProt 227–449 Author chain D； PDBConstruct 250–421； UniProt 50–221 Author chain E； PDBConstruct 14–236； UniProt 227–449 Author chain E； PDBConstruct 250–421； UniProt 50–221 Author chain F； PDBConstruct 14–236； UniProt 227–449 Author chain F； PDBConstruct 250–421； UniProt 50–221 Author chain G； PDBConstruct 14–236； UniProt 227–449 Author chain G； PDBConstruct 250–421； UniProt 50–221 Author chain H； PDBConstruct 14–236； UniProt 227–449 Author chain H； PDBConstruct 250–421； UniProt 50–221 Author chain I； PDBConstruct 14–236； UniProt 227–449 Author chain I； PDBConstruct 250–421； UniProt 50–221 Author chain J； PDBConstruct 14–236； UniProt 227–449 Author chain J； PDBConstruct 250–421； UniProt 50–221

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_id6qd6
Deposition date deposition_date2018-12-31
Structure title titleMolecular scaffolds expand the nanobody toolkit for cryo-EM applications: crystal structure of Mb-cHopQ-Nb207
Keywords keywordsScaffold, STRUCTURAL PROTEIN; STRUCTURAL 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.

6qd6__assembly_8__model_1

Assembly 8 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

6qd6__assembly_8__model_1 | I(q)

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

6qd6__assembly_8__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）30.31 Å
Rg (electron density)30.89 Å
Total Rg30.99 Å
Atom count3015
Residues399
Excluded volume53154 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6qd6__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 6qd6__assembly_2__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 6qd6__assembly_3__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 6qd6__assembly_4__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 6qd6__assembly_5__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 6qd6__assembly_6__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
7 1 6qd6__assembly_7__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
8 1 6qd6__assembly_8__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
9 1 6qd6__assembly_9__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
10 1 6qd6__assembly_10__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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7. Citations (1)