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2k9f

Structural features of the complex between the DsbD N-terminal and the PilB N-terminal domains from Neisseria meningitidis

Method: SOLUTION NMR
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Thioredoxin

Neisseria meningitidis serogroup A

UniProt Q9JWM8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Thiol:disulfide interchange protein dsbD × 1 （Q9JYM0） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2fy6 2jzr 2jzs 3bqe 3bqf 3bqg 3bqh 3hch 3hch

9 assemblies

Homodimer

None

Homotetramer
3hcg

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
2k9f

1 assemblies

View Construct and Data Evidence
UniProt name MSRAB_NEIMA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–144； UniProt 34–176

Thiol:disulfide interchange protein dsbD

Neisseria meningitidis serogroup B

UniProt Q9JYM0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Thioredoxin × 1 （Q9JWM8） Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2k0r

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2k9f

1 assemblies

View Construct and Data Evidence
UniProt name DSBD_NEIMB
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 2–128； UniProt 20–146

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_id2k9f
Deposition date deposition_date2008-10-09
Structure title titleStructural features of the complex between the DsbD N-terminal and the PilB N-terminal domains from Neisseria meningitidis
Keywords keywords;protein, docking, thioredoxin, immunoglobulin, DsbD, PilB, Electron transport, Multifunctional enzyme, Oxidoreductase, Redox-active center, Transport, Cytochrome c-type biogenesis, Inner membrane, Membrane, NAD, Transmembrane ;; OXIDOREDUCTASE
Experimental Method methodSOLUTION NMR
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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.

2k9f__assembly_1__model_5

Assembly 1 · Model 5 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2k9f__assembly_1__model_5 | I(q)

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

2k9f__assembly_1__model_5 | 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）21.97 Å
Rg (electron density)21.01 Å
Total Rg21.93 Å
Atom count2570
Residues272
Excluded volume37771 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2k9f__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 2 2k9f__assembly_1__model_2 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 3 2k9f__assembly_1__model_3 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 4 2k9f__assembly_1__model_4 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 5 2k9f__assembly_1__model_5 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 6 2k9f__assembly_1__model_6 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 7 2k9f__assembly_1__model_7 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 8 2k9f__assembly_1__model_8 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 9 2k9f__assembly_1__model_9 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
1 10 2k9f__assembly_1__model_10 dimeric （2） 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) 5 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd2k9fa_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.47 — Thioredoxin fold
Superfamily Superfamily superfamilyc.47.1 — Thioredoxin-like
Family Family familyc.47.1.10 — Glutathione peroxidase-like
Domain ID domain_idd2k9fb1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.17 — Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)
Family Family familyb.1.17.1 — Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)
Domain ID domain_idd2k9fb2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (2 domains)

Domain ID domain_id2k9fA00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology30 — Glutaredoxin
Homologous superfamily homologous superfamily10 — Glutaredoxin
Domain ID domain_id2k9fB00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily1250 — Thiol:disulfide interchange protein DsbD, N-terminal domain
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7. Citations (1)