← Back to search
9lno

human Betaine/GABA transporter 1 in inward facing conformation

Method: ELECTRON MICROSCOPY Dmax: 84.8 Å Quality: GOOD
▼

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

Sodium- and chloride-dependent betaine transporter

Homo sapiens

UniProt P48065

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 monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 1–614 Not recorded Y01 CHOLESTEROL HEMISUCCINATE × 2 CL CHLORIDE ION × 1 ELECTRON MICROSCOPY cryo-EM buffer：pH 8 cryo-EM vitrification conditions：Cryogen ETHANE Resolution 3.15 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 9LNO Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
9LNM human Betaine/GABA transporter 1 in complex with GABA Deposited 2025-01-21 Different ligand/ion Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded Y01 CHOLESTEROL HEMISUCCINATE × 2 ABU GAMMA-AMINO-BUTANOIC ACID × 1 NA SODIUM ION × 3 CL CHLORIDE ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.67 Å
9LNN human Betaine/GABA transporter 1 in complex with Betaine Deposited 2025-01-21 Different ligand/ion Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded BET TRIMETHYL GLYCINE × 1 Y01 CHOLESTEROL HEMISUCCINATE × 2 CL CHLORIDE ION × 1 NA SODIUM ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
9W97 Structure of BPDBA-bound state of the human betaine/GABA transporter 1 Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded A1EVN 2,4-bis(chloranyl)-~{N}-[1-(phenylmethyl)piperidin-4-yl]benzamide × 1 CL CHLORIDE ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.84 Å
9W98 Structure of ATPCA-bound state of the human betaine/GABA transporter 1 Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded A1EMK 2-azanyl-1,4,5,6-tetrahydropyrimidine-5-carboxylic acid × 1 CL CHLORIDE ION × 1 NA SODIUM ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.71 Å
9W99 Structure of betaine-bound state of the human betaine/GABA transporter 1 Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded BET TRIMETHYL GLYCINE × 1 NA SODIUM ION × 2 CL CHLORIDE ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.04 Å
9W9A Structure of GABA-bound state of the human betaine/GABA transporter 1 Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded ABU GAMMA-AMINO-BUTANOIC ACID × 1 CL CHLORIDE ION × 1 NA SODIUM ION × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.98 Å
9W9B Structure of the apo state of human betaine/GABA transporter 1 in the inward-facing conformation Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded CL CHLORIDE ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.87 Å
9W9C Structure of the apo state of human betaine/GABA transporter 1 in the occluded conformation Deposited 2025-08-09 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–614（614 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.02 Å

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

View Construct and Data Evidence
UniProt name S6A12_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–614； UniProt 1–614

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 9lno

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9lno
Download Download
▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id9lno
Deposition date deposition_date2025-01-21
Structure title titlehuman Betaine/GABA transporter 1 in inward facing conformation
Keywords keywordstransport proteins, PROTEIN TRANSPORT; PROTEIN TRANSPORT
Experimental Method methodELECTRON MICROSCOPY
▼

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

Radius of gyration Rg (Guinier) rg_guinier25.32 Å
Radius of gyration Rg (electron density) rg_electron24.17 Å
Forward intensity I(0) i048517600.00
Molecular weight molecular_weight61360.0 kDa
Excluded volume excluded_volume79719 ų
Envelope volume envelope_volume94406 ų
Hydration-shell volume shell_volume31887 ų
Envelope diameter envelope_diameter87.4 Å
Shell Rg shell_rg32.23 Å
Envelope Rg envelope_rg24.38 Å
Shape Rg shape_rg24.17 Å
Total Rg total_rg25.19 Å
Total atoms total_atoms4335
Residues n_residues530
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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 dmax84.8 Å
Rg (real space) rg_real25.28 Å
Rg uncertainty (real space) rg_real_error0.60 Å
I(0) (real space) i0_real4.8520e+07
I(0) uncertainty (real space) i0_real_error7.2360e+05
Rg (reciprocal space) rg_reciprocal25.29 Å
I(0) (reciprocal space) i0_reciprocal48520000.0000
Solution quality estimate total_estimate0.8753
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary29.6 Å
Skewness Skewness skewness0.366
Kurtosis Kurtosis kurtosis-0.174
Angular range angular_range— – 0.3150 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha9751000.0000
Real-space data points n_real_points64
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.800; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.985
▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (3)

▶

8. Citations (1)

▶

9. Files and Curves (10)