2q0a

Structure and rearrangements in the carboxy-terminal region of SpIH channels

Method: X-RAY DIFFRACTION Dmax: 78.7 Å Quality: EXCELLENT

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

Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2

Mus musculus

UniProt O88703

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 443–640 Fragment:C-TERMINAL DOMAIN (residues 443-640) Mutation:I636D PCG CYCLIC GUANOSINE MONOPHOSPHATE × 4 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5;277 K;10 % w/v PEG 8000, 0.5 M NaCl, 15 % Glycerol, 0.1 M MES, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 2.25 Å R-free 0.261
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 443–640 Fragment:C-TERMINAL DOMAIN (residues 443-640) Mutation:I636D PCG CYCLIC GUANOSINE MONOPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5;277 K;10 % w/v PEG 8000, 0.5 M NaCl, 15 % Glycerol, 0.1 M MES, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 2.25 Å R-free 0.261
3 Protein homooligomer Homooligomer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain A; UniProt 443–640 Chain B; UniProt 443–640 Fragment:C-TERMINAL DOMAIN (residues 443-640) Mutation:I636D PCG CYCLIC GUANOSINE MONOPHOSPHATE × 8 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5;277 K;10 % w/v PEG 8000, 0.5 M NaCl, 15 % Glycerol, 0.1 M MES, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 2.25 Å R-free 0.261
4 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain B; UniProt 443–640 Fragment:C-TERMINAL DOMAIN (residues 443-640) Mutation:I636D PCG CYCLIC GUANOSINE MONOPHOSPHATE × 4 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5;277 K;10 % w/v PEG 8000, 0.5 M NaCl, 15 % Glycerol, 0.1 M MES, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 2.25 Å R-free 0.261

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 21 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HCN2_MOUSE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 3–200; UniProt 443–640 Author chain B; PDBConstruct 3–200; UniProt 443–640

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 2q0a

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2q0a
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2q0a
Deposition date deposition_date2007-05-21
Structure title titleStructure and rearrangements in the carboxy-terminal region of SpIH channels
Keywords keywordsHCN2, ion channel, cyclic nucleotide binding domain, C-linker, cGMP, 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_guinier25.68
Radius of gyration Rg (electron density) rg_electron24.72
Forward intensity I(0) i037877200.00
Molecular weight molecular_weight46301.0 kDa
Excluded volume excluded_volume57547 ų
Envelope volume envelope_volume73954 ų
Hydration-shell volume shell_volume25164 ų
Envelope diameter envelope_diameter79.7
Shell Rg shell_rg31.56
Envelope Rg envelope_rg24.56
Shape Rg shape_rg24.68
Total Rg total_rg25.67
Total atoms total_atoms3252
Residues n_residues388
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 dmax78.7
Rg (real space) rg_real25.61
Rg uncertainty (real space) rg_real_error0.42
I(0) (real space) i0_real3.7880e+07
I(0) uncertainty (real space) i0_real_error4.9610e+05
Rg (reciprocal space) rg_reciprocal25.63
I(0) (reciprocal space) i0_reciprocal37880000.0000
Solution quality estimate total_estimate0.9129
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary31.8
Skewness Skewness skewness0.193
Kurtosis Kurtosis kurtosis-0.548
Angular range angular_range— – 0.3100 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4407000.0000
Real-space data points n_real_points63
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.974; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.941

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2q0aa_
Class classb — All beta proteins
Fold Fold foldb.82 — Double-stranded beta-helix
Superfamily Superfamily superfamilyb.82.3 — cAMP-binding domain-like
Family Family familyb.82.3.2 — cAMP-binding domain
Domain ID domain_idd2q0ab_
Class classb — All beta proteins
Fold Fold foldb.82 — Double-stranded beta-helix
Superfamily Superfamily superfamilyb.82.3 — cAMP-binding domain-like
Family Family familyb.82.3.2 — cAMP-binding domain

CATH v4.4 (4 domains)

Domain ID domain_id2q0aA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily630 — Helix hairpin bin
Domain ID domain_id2q0aA02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls
Domain ID domain_id2q0aB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily630 — Helix hairpin bin
Domain ID domain_id2q0aB02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls

8. Citations (1)

9. Files and Curves (10)