1hkn

A complex between acidic fibroblast growth factor and 5-amino-2-naphthalenesulfonate

Method: X-RAY DIFFRACTION Dmax: 131.4 Å Quality: GOOD

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

HEPARIN-BINDING GROWTH FACTOR 1

HOMO SAPIENS

UniProt P05230

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 17–155 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 17–155 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain C; UniProt 17–155 Not recorded N2M 5-AMINO-NAPHTALENE-2-MONOSULFONATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain D; UniProt 17–155 Not recorded N2M 5-AMINO-NAPHTALENE-2-MONOSULFONATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259
5 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain E; UniProt 17–155 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259
6 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain F; UniProt 17–155 Not recorded No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:pH 7.8;CRYSTALS OF THE COMPLEX BETWEEN AFGF AND 5-AMINO-2-NMS WERE GROWN BY MIXING 0.75 MM PROTEIN, 1.5 MM OF THE INHIBITOR AND 60% SODIUM/PO, pH 7.80 Resolution 2.00 Å R-free 0.259

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.

96 other PDB entries and 212 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FGF1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–139; UniProt 17–155 Author chain B; PDBConstruct 1–139; UniProt 17–155 Author chain C; PDBConstruct 1–139; UniProt 17–155 Author chain D; PDBConstruct 1–139; UniProt 17–155 Author chain E; PDBConstruct 1–139; UniProt 17–155 Author chain F; PDBConstruct 1–139; UniProt 17–155

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 1hkn

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1hkn
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1hkn
Deposition date deposition_date2003-03-10
Structure title titleA complex between acidic fibroblast growth factor and 5-amino-2-naphthalenesulfonate
Keywords keywordsGROWTH FACTOR, MITOGEN, ANGIOGENESIS, HEPARIN-BINDING; GROWTH FACTOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier37.81
Radius of gyration Rg (electron density) rg_electron37.96
Forward intensity I(0) i0121140000.00
Molecular weight molecular_weight87966.0 kDa
Excluded volume excluded_volume109790 ų
Envelope volume envelope_volume141780 ų
Hydration-shell volume shell_volume33679 ų
Envelope diameter envelope_diameter135.2
Shell Rg shell_rg40.10
Envelope Rg envelope_rg37.65
Shape Rg shape_rg37.94
Total Rg total_rg38.15
Total atoms total_atoms6198
Residues n_residues778
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 dmax131.4
Rg (real space) rg_real38.27
Rg uncertainty (real space) rg_real_error1.66
I(0) (real space) i0_real1.2110e+08
I(0) uncertainty (real space) i0_real_error2.5580e+06
Rg (reciprocal space) rg_reciprocal37.99
I(0) (reciprocal space) i0_reciprocal121100000.0000
Solution quality estimate total_estimate0.7977
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary34.4
Skewness Skewness skewness0.483
Kurtosis Kurtosis kurtosis-0.560
Angular range angular_range— – 0.2100 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha8113000.0000
Real-space data points n_real_points43
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.640; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.655; Smooth: 0.791

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd1hkna_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)
Domain ID domain_idd1hknb_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)
Domain ID domain_idd1hknc_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)
Domain ID domain_idd1hknd_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)
Domain ID domain_idd1hkne_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)
Domain ID domain_idd1hknf_
Class classb — All beta proteins
Fold Fold foldb.42 — beta-Trefoil
Superfamily Superfamily superfamilyb.42.1 — Cytokine
Family Family familyb.42.1.1 — Fibroblast growth factors (FGF)

CATH v4.4 (6 domains)

Domain ID domain_id1hknA00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50
Domain ID domain_id1hknB00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50
Domain ID domain_id1hknC00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50
Domain ID domain_id1hknD00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50
Domain ID domain_id1hknE00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50
Domain ID domain_id1hknF00
Class class2 — Mainly Beta
Architecture architecture80 — Trefoil
Topology topology10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Homologous superfamily homologous superfamily50

8. Citations (3)

9. Files and Curves (10)