SAXSdb — 10rx

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

Transcriptional regulator, Crp/Fnr family

Winmispira thermophila

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 1–420 Chain B； UniProt 1–420 Chain C； UniProt 1–420 Chain D； UniProt 1–420	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 32	ELECTRON MICROSCOPY cryo-EM buffer：pH 7.4 cryo-EM vitrification conditions：Cryogen ETHANE	Resolution 2.51 Å

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.

Other PDB	Difference from Current Entry 10RX	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
6CJQ Structure of the SthK cyclic nucleotide-gated potassium channel Deposited 2018-02-26	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.42 Å
6CJT Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cGMP Deposited 2018-02-26	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	PCG CYCLIC GUANOSINE MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.46 Å
6CJU Structure of the SthK cyclic nucleotide-gated potassium channel in complex with cAMP Deposited 2018-02-26	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 32	ELECTRON MICROSCOPY cryo-EM buffer pH 8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.35 Å
6VXZ SthK P300A cyclic nucleotide-gated potassium channel in the closed state, in complex with cAMP Deposited 2020-02-25	Different mutation/modification Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：P300A Mutation：P300A Mutation：P300A Mutation：P300A	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.42 Å
6VY0 SthK P300A cyclic nucleotide-gated potassium channel in a putative active state, in complex with cAMP Deposited 2020-02-25	Different mutation/modification Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：P300A Mutation：P300A Mutation：P300A Mutation：P300A	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 6.68 Å
7RYR SthK R120A Open State 3 Deposited 2021-08-26	Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：R120A Mutation：R120A Mutation：R120A Mutation：R120A	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.60 Å
7RYS SthK R120A Open State 2 Deposited 2021-08-26	Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：R120A Mutation：R120A Mutation：R120A Mutation：R120A	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.70 Å
7TJ5 SthK closed state, cAMP-bound in the presence of POPA Deposited 2022-01-14	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 D21 (2R)-1-(hexadecanoyloxy)-3-(phosphonooxy)propan-2-yl (9Z)-octadec-9-enoate × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.41 Å
7TJ6 SthK open state, cAMP-bound in the presence of POPA Deposited 2022-01-14	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 D21 (2R)-1-(hexadecanoyloxy)-3-(phosphonooxy)propan-2-yl (9Z)-octadec-9-enoate × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.90 Å
7TKT SthK closed state, cAMP-bound in the presence of detergent Deposited 2022-01-17	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PGW (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate × 52	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.60 Å
8VT9 WT SthK in the presence of PIP2 and cAMP Deposited 2024-01-26	Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE；30 s incubation 2 s blotting blot force -4	Resolution 2.90 Å
8VTA SthK R120A in the presence of PIP2 and cAMP Deposited 2024-01-26	Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：R120A Mutation：R120A Mutation：R120A Mutation：R120A	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE；30 s incubation 2 s blotting blot force -4	Resolution 3.00 Å
8VTB SthK R120A R124A in the presence of PIP2 and cAMP Deposited 2024-01-26	Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Mutation：R120A R124A Mutation：R120A R124A Mutation：R120A R124A Mutation：R120A R124A	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 24	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE；30 s incubation 2 s blotting blot force -4	Resolution 2.50 Å
9NWJ Apo WT SthK in 3:1 DOPC:POPE nanodiscs Deposited 2025-03-23	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 20	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.69 Å
9NWK cAMP-bound WT SthK in 3:1 DOPC:POPE nanodiscs Deposited 2025-03-23	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 16	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.74 Å
9OXL SthK closed state at low temperature, cAMP-bound in the presence of DOPE Deposited 2025-06-03	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.62 Å
9OXM SthK intermediate state at low temperature, cAMP-bound in the presence of DOPE Deposited 2025-06-03	Different ligand/ion Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–420（420 aa） Chain B 1–420（420 aa） Chain C 1–420（420 aa） Chain D 1–420（420 aa）	Not recorded	CMP ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE × 4 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 28	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.79 Å

17 other PDB entries and 17 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	G0GA88_SPITZ
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 20–439； UniProt 1–420 Author chain B； PDBConstruct 20–439； UniProt 1–420 Author chain C； PDBConstruct 20–439； UniProt 1–420 Author chain D； PDBConstruct 20–439； UniProt 1–420

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	10rx
Deposition date deposition_date	2026-02-04
Structure title title	SthK closed state at low temperature, cAMP-bound in DOPC nanodiscs
Keywords keywords	cyclic nucleotide-gated channel, lipid modulation, pacemaker channel, TRANSPORT PROTEIN, potassium channel, thermoreceptor; TRANSPORT PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier	39.54 Å
Radius of gyration Rg (electron density) rg_electron	38.91 Å
Forward intensity I(0) i0	413990000.00
Molecular weight molecular_weight	188980.0 kDa
Excluded volume excluded_volume	246380 Å³
Envelope volume envelope_volume	317210 Å³
Hydration-shell volume shell_volume	66272 Å³
Envelope diameter envelope_diameter	118.1 Å
Shell Rg shell_rg	46.41 Å
Envelope Rg envelope_rg	37.94 Å
Shape Rg shape_rg	38.91 Å
Total Rg total_rg	39.40 Å
Total atoms total_atoms	27540
Residues n_residues	1580
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	120.7 Å
Rg (real space) rg_real	39.30 Å
Rg uncertainty (real space) rg_real_error	1.04 Å
I(0) (real space) i0_real	4.1400e+08
I(0) uncertainty (real space) i0_real_error	7.6930e+06
Rg (reciprocal space) rg_reciprocal	39.45 Å
I(0) (reciprocal space) i0_reciprocal	414100000.0000
Solution quality estimate total_estimate	0.8977
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	48.3 Å
Skewness Skewness skewness	0.139
Kurtosis Kurtosis kurtosis	-0.554
Angular range angular_range	— – 0.2000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	28500000.0000
Real-space data points n_real_points	41
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.931; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.981; Smooth: 0.894

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	Transcriptional regulator, Crp/Fnr family
Molecular weight formula_weight	51118.6 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	27540

MAKDIGINSDPNSSSVDKLMKSSGVSNPTYTLVWKVWILAVTLYYAIRIPLTLVFPSLFSPLLPLDILASLALIADIPLDLAFESRRTSGRKPTLLAPSRLPDLLAALPLDLLVFALHLPSPLSLLSLVRLLKLISVQRSATRILSYRINPALLRLLSLVGFILLAAHGIACGWMSLQPPSENPAGTRYLSAFYWTITTLTTIGYGDITPSTPTQTVYTIVIELLGAAMYGLVIGNIASLVSKLDAAKLLHRERVERVTAFLSYKRISPELQRRIIEYFDYLWETRRGYEEREVLKELPHPLRLAVAMEIHGDVIEKVPLFKGAGEEFIRDIILHLEPVIYGPGEYIIRAGEMGSDVYFINRGSVEVLSADEKTRYAILSEGQFFGEMALILRAPRTATVRARAFCDLYRLDKETFDRILSRYPEIAAQIQELAVRRKELESSGLVPRGSVKHHHH

来源 Source

来源生物 organism	Winmispira thermophila
NCBI Class编号 ncbi_taxonomy_id	154
宿主生物 host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 non-polymer

Description description	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
Molecular weight formula_weight	329.2 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 3 Entity 3 non-polymer

Description description	1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
Molecular weight formula_weight	787.1 kDa
Source method src_method	syn
Copy count entity_count	32

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8. Citations (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	2.510 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	2.51 Å
Resolution测定方法 resolution_method	—
颗粒数 num_particles	377840

fit	/app/data/saxs_computation/0r/10rx/10rx.fit
pddf	/app/data/pr_computation/0r/10rx/10rx.pr.out
profile	/app/data/saxs_computation/0r/10rx/10rx.dat

SthK closed state at low temperature, cAMP-bound in DOPC nanodiscs

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

Transcriptional regulator, Crp/Fnr family

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

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

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D