1qav

Unexpected Modes of PDZ Domain Scaffolding Revealed by Structure of NNOS-Syntrophin Complex

Method: X-RAY DIFFRACTION Dmax: 62.4 Å Quality: GOOD

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

ALPHA-1 SYNTROPHIN (RESIDUES 77-171)

Mus musculus

UniProt Q61234

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 75–164 Not recorded NEURONAL NITRIC OXIDE SYNTHASE (RESIDUES 1-130) × 1 (P29476) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8.5;298 K;VAPOR DIFFUSION, SITTING DROP, PH 8.5, 298K, 25% PEG4000, 0.2M SODIUM ACETATE, 100MM TRIS Resolution 1.90 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.

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

View Construct and Data Evidence
UniProt name SNTA1_MOUSE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–90; UniProt 75–164

NEURONAL NITRIC OXIDE SYNTHASE (RESIDUES 1-130)

Rattus norvegicus

UniProt P29476

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 12–126 Not recorded ALPHA-1 SYNTROPHIN (RESIDUES 77-171) × 1 (Q61234) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8.5;298 K;VAPOR DIFFUSION, SITTING DROP, PH 8.5, 298K, 25% PEG4000, 0.2M SODIUM ACETATE, 100MM TRIS Resolution 1.90 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.

348 other PDB entries and 351 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name NOS1_RAT
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–115; UniProt 12–126

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 1qav

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id1qav
Deposition date deposition_date1999-03-30
Structure title titleUnexpected Modes of PDZ Domain Scaffolding Revealed by Structure of NNOS-Syntrophin Complex
Keywords keywordsBETA-FINGER, HETERODIMER, membrane protein-oxidoreductase COMPLEX; membrane protein/oxidoreductase
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.14
Radius of gyration Rg (electron density) rg_electron18.27
Forward intensity I(0) i08045790.00
Molecular weight molecular_weight21340.0 kDa
Excluded volume excluded_volume27066 ų
Envelope volume envelope_volume32248 ų
Hydration-shell volume shell_volume15414 ų
Envelope diameter envelope_diameter62.1
Shell Rg shell_rg23.38
Envelope Rg envelope_rg18.52
Shape Rg shape_rg18.26
Total Rg total_rg19.16
Total atoms total_atoms1503
Residues n_residues205
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 dmax62.4
Rg (real space) rg_real19.14
Rg uncertainty (real space) rg_real_error0.36
I(0) (real space) i0_real8.0460e+06
I(0) uncertainty (real space) i0_real_error9.0240e+04
Rg (reciprocal space) rg_reciprocal19.14
I(0) (reciprocal space) i0_reciprocal8046000.0000
Solution quality estimate total_estimate0.8890
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary21.7
Skewness Skewness skewness0.362
Kurtosis Kurtosis kurtosis-0.334
Angular range angular_range— – 0.4150 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1433000.0000
Real-space data points n_real_points73
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.855; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.990; Smooth: 0.999

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1qava_
Class classb — All beta proteins
Fold Fold foldb.36 — PDZ domain-like
Superfamily Superfamily superfamilyb.36.1 — PDZ domain-like
Family Family familyb.36.1.1 — PDZ domain
Domain ID domain_idd1qavb_
Class classb — All beta proteins
Fold Fold foldb.36 — PDZ domain-like
Superfamily Superfamily superfamilyb.36.1 — PDZ domain-like
Family Family familyb.36.1.1 — PDZ domain

CATH v4.4 (2 domains)

Domain ID domain_id1qavA00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology42 — Pdz3 Domain
Homologous superfamily homologous superfamily10 — PDZ domain
Domain ID domain_id1qavB00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology42 — Pdz3 Domain
Homologous superfamily homologous superfamily10 — PDZ domain

8. Citations (1)

9. Files and Curves (10)