5hlz

Structure of Pro-Activin A Complex at 2.85 A resolution

Method: X-RAY DIFFRACTION Dmax: 163.2 Å Quality: GOOD

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

Inhibin beta A chain

Homo sapiens

UniProt P08476

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 homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 30–305 Chain B; UniProt 311–426 Chain C; UniProt 30–305 Chain D; UniProt 311–426 Fragment:Pro domain, UNP Residues 30-305 Mutation:;C35S, C38S, deletion of K259-D282, furin cleavage site (RRRRR) replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site (RRRRR) replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site replaced by HRV 3C protease cleavage site (LEVLFQGP) ; Fragment:Mature domain, UNP Residues 311-426 No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;20% w/v polyethylene glycol 3350, 0.2 M calcium chloride; cryo: 15% v/v PEG 400 added Resolution 2.85 Å R-free 0.274
2 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain E; UniProt 30–305 Chain F; UniProt 311–426 Chain G; UniProt 30–305 Chain H; UniProt 311–426 Fragment:Pro domain, UNP Residues 30-305 Mutation:;C35S, C38S, deletion of K259-D282, furin cleavage site (RRRRR) replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site (RRRRR) replaced by HRV 3C protease cleavage site (LEVLFQGP),C35S, C38S, deletion of K259-D282, furin cleavage site replaced by HRV 3C protease cleavage site (LEVLFQGP) ; Fragment:Mature domain, UNP Residues 311-426 No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;20% w/v polyethylene glycol 3350, 0.2 M calcium chloride; cryo: 15% v/v PEG 400 added Resolution 2.85 Å R-free 0.274

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.

14 other PDB entries and 18 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name INHBA_HUMAN
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 11–262; UniProt 30–305 Author chain C; PDBConstruct 11–262; UniProt 30–305 Author chain E; PDBConstruct 11–262; UniProt 30–305 Author chain G; PDBConstruct 11–262; UniProt 30–305 Author chain B; PDBConstruct 1–116; UniProt 311–426 Author chain D; PDBConstruct 1–116; UniProt 311–426 Author chain F; PDBConstruct 1–116; UniProt 311–426 Author chain H; PDBConstruct 1–116; UniProt 311–426

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 5hlz

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5hlz
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5hlz
Deposition date deposition_date2016-01-15
Structure title titleStructure of Pro-Activin A Complex at 2.85 A resolution
Keywords keywordsGrowth factor, Precursor, Signalling, Signaling Protein; SIGNALING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier48.69
Radius of gyration Rg (electron density) rg_electron49.73
Forward intensity I(0) i0261526000.00
Molecular weight molecular_weight130880.0 kDa
Excluded volume excluded_volume163560 ų
Envelope volume envelope_volume263250 ų
Hydration-shell volume shell_volume49363 ų
Envelope diameter envelope_diameter175.3
Shell Rg shell_rg45.77
Envelope Rg envelope_rg49.13
Shape Rg shape_rg49.73
Total Rg total_rg49.55
Total atoms total_atoms9153
Residues n_residues1154
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 dmax163.2
Rg (real space) rg_real49.56
Rg uncertainty (real space) rg_real_error2.17
I(0) (real space) i0_real2.6150e+08
I(0) uncertainty (real space) i0_real_error5.4150e+06
Rg (reciprocal space) rg_reciprocal48.70
I(0) (reciprocal space) i0_reciprocal261200000.0000
Solution quality estimate total_estimate0.7651
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary51.0
Skewness Skewness skewness0.592
Kurtosis Kurtosis kurtosis-0.281
Angular range angular_range— – 0.1600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha13100000.0000
Real-space data points n_real_points33
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.758; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.658; Smooth: 0.012

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_id5hlzF00
Class class2 — Mainly Beta
Architecture architecture10 — Ribbon
Topology topology90 — Cystine Knot Cytokines, subunit B
Homologous superfamily homologous superfamily10 — Cystine-knot cytokines

8. Citations (1)

9. Files and Curves (10)