4jo9

Crystal structure of the human Nup49CCS2+3* Nup57CCS3* complex 1:2 stoichiometry

Method: X-RAY DIFFRACTION Dmax: 82.8 Å Quality: REASONABLE

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

Nucleoporin p54

Homo sapiens

UniProt Q7Z3B4

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 × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain A; UniProt 453–491 Chain C; UniProt 453–491 Fragment:UNP residues 453-491 Nucleoporin p58/p45 × 1 (Q9BVL2) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 3.8;294 K;0.1 M sodium citrate, pH 3.8, 0.07 M calcium chloride, VAPOR DIFFUSION, temperature 294.0K 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.

8 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name NUP54_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 2–40; UniProt 453–491 Author chain C; PDBConstruct 2–40; UniProt 453–491

Nucleoporin p58/p45

Homo sapiens

UniProt Q9BVL2

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 × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain B; UniProt 341–426 Fragment:UNP residues 341-426 Nucleoporin p54 × 2 (Q7Z3B4) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION;pH 3.8;294 K;0.1 M sodium citrate, pH 3.8, 0.07 M calcium chloride, VAPOR DIFFUSION, temperature 294.0K 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.

7 other PDB entries and 10 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name NUPL1_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 2–87; UniProt 341–426

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 4jo9

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4jo9
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4jo9
Deposition date deposition_date2013-03-18
Structure title titleCrystal structure of the human Nup49CCS2+3* Nup57CCS3* complex 1:2 stoichiometry
Keywords keywordsnucleocytoplasmic transport, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier21.67
Radius of gyration Rg (electron density) rg_electron21.56
Forward intensity I(0) i06493420.00
Molecular weight molecular_weight18969.0 kDa
Excluded volume excluded_volume23958 ų
Envelope volume envelope_volume31512 ų
Hydration-shell volume shell_volume13971 ų
Envelope diameter envelope_diameter81.5
Shell Rg shell_rg25.38
Envelope Rg envelope_rg22.24
Shape Rg shape_rg21.54
Total Rg total_rg22.26
Total atoms total_atoms2695
Residues n_residues161
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 dmax82.8
Rg (real space) rg_real22.04
Rg uncertainty (real space) rg_real_error0.77
I(0) (real space) i0_real6.4930e+06
I(0) uncertainty (real space) i0_real_error9.2480e+04
Rg (reciprocal space) rg_reciprocal21.97
I(0) (reciprocal space) i0_reciprocal6493000.0000
Solution quality estimate total_estimate0.7438
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary19.8
Skewness Skewness skewness0.697
Kurtosis Kurtosis kurtosis0.124
Angular range angular_range— – 0.3650 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha722500.0000
Real-space data points n_real_points68
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.476; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.302; Smooth: 0.934

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id4jo9B00
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1350

8. Citations (1)

9. Files and Curves (10)