← Back to search
3ve1

The 2.9 angstrom crystal structure of Transferrin binding protein B (TbpB) from serogroup B M982 Neisseria meningitidis in complex with human transferrin

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

Transferrin-binding protein 2

Neisseria meningitidis serogroup B

UniProt Q09057

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Serotransferrin × 1 （P02787） GLYCEROL × 8 CARBONATE ION × 1 FE (III) ION × 1 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Serotransferrin × 1 （P02787） GLYCEROL × 5 CARBONATE ION × 1 FE (III) ION × 1 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3ve2 3ve2

2 assemblies

Homodimer
3ve2

1 assemblies

Homotetramer
3ve2 3ve2

2 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
3ve1 3ve1

2 assemblies

View Construct and Data Evidence
UniProt name TBB1_NEIMB
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 3–658； UniProt 56–711 Author chain C； PDBConstruct 3–658； UniProt 56–711

Serotransferrin

Homo sapiens

UniProt P02787

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Transferrin-binding protein 2 × 1 （Q09057） GLYCEROL × 8 CARBONATE ION × 1 FE (III) ION × 1 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Transferrin-binding protein 2 × 1 （Q09057） GLYCEROL × 5 CARBONATE ION × 1 FE (III) ION × 1 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1a8e 1a8f 1b3e 1bp5 1bp5 1bp5 1bp5 1btj 1btj 1d3k 1d4n 1dtg

68 assemblies; showing the first 12

Homodimer
3skp

1 assemblies

Homotetramer
3skp

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
1suv 3s9l 3s9l 3s9m 3s9m 3s9n 3s9n 3v89 3v8x 3ve1 3ve1 6d03

25 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name TRFE_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–679； UniProt 20–698 Author chain D； PDBConstruct 1–679； UniProt 20–698

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id3ve1
Deposition date deposition_date2012-01-06
Structure title titleThe 2.9 angstrom crystal structure of Transferrin binding protein B (TbpB) from serogroup B M982 Neisseria meningitidis in complex with human transferrin
Keywords keywords;Transferrin receptor, iron acquisition, vaccine candidate, protein-protein complex, host pathogen interaction, Receptor, transferrin, Lipoprotein, Outermembrane protein, TRANSPORT PROTEIN ;; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION
▼

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.

3ve1__assembly_1__model_1

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

Download this curve (.dat)

3ve1__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.

3ve1__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）40.47 Å
Rg (electron density)40.41 Å
Total Rg40.60 Å
Atom count9525
Residues1212
Excluded volume167910 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3ve1__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3ve1__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (6)

▼

6. Fold Classification (SCOP + CATH) 16 domains

CATH v4.4 (16 domains)

Domain ID domain_id3ve1A01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology128 — Lipocalin
Homologous superfamily homologous superfamily250 —
Domain ID domain_id3ve1A02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily90 —
Domain ID domain_id3ve1A03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology128 — Lipocalin
Homologous superfamily homologous superfamily240 —
Domain ID domain_id3ve1A04
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily90 —
Domain ID domain_id3ve1B01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1B02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1B03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1B04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1C01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology128 — Lipocalin
Homologous superfamily homologous superfamily250 —
Domain ID domain_id3ve1C02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily90 —
Domain ID domain_id3ve1C03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology128 — Lipocalin
Homologous superfamily homologous superfamily240 —
Domain ID domain_id3ve1C04
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology160 — Porin
Homologous superfamily homologous superfamily90 —
Domain ID domain_id3ve1D01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1D02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1D03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
Domain ID domain_id3ve1D04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology190 — D-Maltodextrin-Binding Protein; domain 2
Homologous superfamily homologous superfamily10 — Periplasmic binding protein-like II
▶

7. Citations (1)