4dwh

Structure of the major type 1 pilus subunit FIMA bound to the FIMC (2.5 A resolution)

Method: X-RAY DIFFRACTION Dmax: 106.8 Å Quality: GOOD

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

Chaperone protein fimC

Escherichia coli

UniProt P31697

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 37–241 Not recorded Type-1 fimbrial protein, A chain × 1 (P04128) PEG DI(HYDROXYETHYL)ETHER × 7 PG4 TETRAETHYLENE GLYCOL × 1 PO4 PHOSPHATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;293 K;40% (v/v) PEG 400 0.1 M phosphate/citrate pH 4.2 , VAPOR DIFFUSION, SITTING DROP, temperature 293K Resolution 2.50 Å R-free 0.294
2 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain C; UniProt 37–241 Not recorded Type-1 fimbrial protein, A chain × 1 (P04128) PEG DI(HYDROXYETHYL)ETHER × 3 PG4 TETRAETHYLENE GLYCOL × 1 PGE TRIETHYLENE GLYCOL × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;293 K;40% (v/v) PEG 400 0.1 M phosphate/citrate pH 4.2 , VAPOR DIFFUSION, SITTING DROP, temperature 293K Resolution 2.50 Å R-free 0.294

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

22 other PDB entries and 55 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FIMC_ECOLI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–205; UniProt 37–241 Author chain C; PDBConstruct 1–205; UniProt 37–241

Type-1 fimbrial protein, A chain

Escherichia coli

UniProt P04128

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain B; UniProt 41–182 Not recorded Chaperone protein fimC × 1 (P31697) PEG DI(HYDROXYETHYL)ETHER × 7 PG4 TETRAETHYLENE GLYCOL × 1 PO4 PHOSPHATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;293 K;40% (v/v) PEG 400 0.1 M phosphate/citrate pH 4.2 , VAPOR DIFFUSION, SITTING DROP, temperature 293K Resolution 2.50 Å R-free 0.294
2 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain D; UniProt 41–182 Not recorded Chaperone protein fimC × 1 (P31697) PEG DI(HYDROXYETHYL)ETHER × 3 PG4 TETRAETHYLENE GLYCOL × 1 PGE TRIETHYLENE GLYCOL × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;293 K;40% (v/v) PEG 400 0.1 M phosphate/citrate pH 4.2 , VAPOR DIFFUSION, SITTING DROP, temperature 293K Resolution 2.50 Å R-free 0.294

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

20 other PDB entries and 24 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FIMA1_ECOLI
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 2–143; UniProt 41–182 Author chain D; PDBConstruct 2–143; UniProt 41–182

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.

SAXS scattering curve SAXS Profile

SAXS profile for 4dwh

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4dwh
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4dwh
Deposition date deposition_date2012-02-24
Structure title titleStructure of the major type 1 pilus subunit FIMA bound to the FIMC (2.5 A resolution)
Keywords keywordsPROTEIN-CHAPERONE COMPLEX, IMMUNOGLOBIN-LIKE FOLD, INVOLVED IN TYPE 1 PILUS ASSEMBLY, STRUCTURAL PROTEIN-CHAPERONE complex; STRUCTURAL PROTEIN/CHAPERONE
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier32.78
Radius of gyration Rg (electron density) rg_electron32.11
Forward intensity I(0) i086303700.00
Molecular weight molecular_weight72852.0 kDa
Excluded volume excluded_volume90983 ų
Envelope volume envelope_volume117740 ų
Hydration-shell volume shell_volume31248 ų
Envelope diameter envelope_diameter105.0
Shell Rg shell_rg37.91
Envelope Rg envelope_rg32.03
Shape Rg shape_rg32.12
Total Rg total_rg32.58
Total atoms total_atoms5110
Residues n_residues665
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax106.8
Rg (real space) rg_real32.81
Rg uncertainty (real space) rg_real_error0.86
I(0) (real space) i0_real8.6300e+07
I(0) uncertainty (real space) i0_real_error1.3700e+06
Rg (reciprocal space) rg_reciprocal32.80
I(0) (reciprocal space) i0_reciprocal86300000.0000
Solution quality estimate total_estimate0.8977
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary37.8
Skewness Skewness skewness0.246
Kurtosis Kurtosis kurtosis-0.641
Angular range angular_range— – 0.2400 −1
Current regularization parameter α current_alpha0.0001
Highest regularization parameter α highest_alpha10420000.0000
Real-space data points n_real_points49
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.940; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.933; Smooth: 0.914

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (7)

7. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd4dwha1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.11 — PapD-like
Family Family familyb.1.11.1 — Pilus chaperone
Domain ID domain_idd4dwha2
Class classb — All beta proteins
Fold Fold foldb.7 — C2 domain-like
Superfamily Superfamily superfamilyb.7.2 — Periplasmic chaperone C-domain
Family Family familyb.7.2.1 — Periplasmic chaperone C-domain
Domain ID domain_idd4dwhc1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.11 — PapD-like
Family Family familyb.1.11.1 — Pilus chaperone
Domain ID domain_idd4dwhc2
Class classb — All beta proteins
Fold Fold foldb.7 — C2 domain-like
Superfamily Superfamily superfamilyb.7.2 — Periplasmic chaperone C-domain
Family Family familyb.7.2.1 — Periplasmic chaperone C-domain

CATH v4.4 (4 domains)

Domain ID domain_id4dwhA01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id4dwhA02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id4dwhC01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id4dwhC02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins

8. Citations (1)

9. Files and Curves (10)