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2jx0

The paxillin-binding domain (PBD) of G Protein Coupled Receptor (GPCR)-kinase (GRK) interacting protein 1 (GIT1)

Method: SOLUTION NMR Dmax: 62.3 Å Quality: REASONABLE
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1. Protein Identity and Related Structures Protein Identity & Related Structures

ARF GTPase-activating protein GIT1

Rattus norvegicus

UniProt Q9Z272

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 640–770 Not recorded No other associated polymer SOLUTION NMR NMR measurement conditions：pH 6.5；310 K；Ionic strength (raw mmCIF value) 20；Pressure AMBIENT NMR sample composition：1.2 mM [U-99% 13C; U-99% 15N] GT, 20 mM potassium phosphate, 5 mM DTT, 5 mM EDTA, 95% H2O/5% D2O | 95% H2O/5% D2O Resolution not provided

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 2JX0 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
2W6A X-ray Structure of the Dimeric GIT1 Coiled-Coil Domain Deposited 2008-12-17 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 426–483（58 aa） Fragment：COILED-COIL, RESIDUES 426-483
Chain B 426–483（58 aa） Fragment：COILED-COIL, RESIDUES 426-483
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 0.1 M TRIS-HCL PH 8.5, 31% PEG 4000, 0.8M NACL
Resolution 1.40 Å R-free 0.199
6IUH Crystal structure of GIT1 PBD domain in complex with Liprin-alpha2 Deposited 2018-11-28 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 645–770（126 aa）
Not recorded IOD IODIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；289 K；0.2M Potassium iodide, 0.1M MES pH 6.5, 25% w/v PEG 4000
Resolution 1.80 Å R-free 0.267
6IUH Crystal structure of GIT1 PBD domain in complex with Liprin-alpha2 Deposited 2018-11-28 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 645–770（126 aa）
Not recorded IOD IODIDE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；289 K；0.2M Potassium iodide, 0.1M MES pH 6.5, 25% w/v PEG 4000
Resolution 1.80 Å R-free 0.267
6IUI Crystal structure of GIT1 PBD domain in complex with Paxillin LD4 motif Deposited 2018-11-28 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 645–770（126 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；289 K；0.1M HEPES pH 7.5, 30% w/v PEG 1000
Resolution 2.60 Å R-free 0.226
6IUI Crystal structure of GIT1 PBD domain in complex with Paxillin LD4 motif Deposited 2018-11-28 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 645–770（126 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；289 K；0.1M HEPES pH 7.5, 30% w/v PEG 1000
Resolution 2.60 Å R-free 0.226

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

View Construct and Data Evidence
UniProt name GIT1_RAT
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 5–135； UniProt 640–770

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 2jx0

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2jx0
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2jx0
Deposition date deposition_date2007-11-01
Structure title titleThe paxillin-binding domain (PBD) of G Protein Coupled Receptor (GPCR)-kinase (GRK) interacting protein 1 (GIT1)
Keywords keywords;paxillin binding domain homologue, ANK repeat, Cytoplasm, GTPase activation, Metal-binding, Phosphorylation, Zinc, Zinc-finger, CELL ADHESION, SIGNALING PROTEIN ;; CELL ADHESION, SIGNALING PROTEIN
Experimental Method methodSOLUTION NMR
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier16.52 Å
Radius of gyration Rg (electron density) rg_electron16.64 Å
Forward intensity I(0) i01144440000.00
Molecular weight molecular_weight291600.0 kDa
Excluded volume excluded_volume367460 ų
Envelope volume envelope_volume30512 ų
Hydration-shell volume shell_volume14931 ų
Envelope diameter envelope_diameter66.5 Å
Shell Rg shell_rg23.23 Å
Envelope Rg envelope_rg18.60 Å
Shape Rg shape_rg16.67 Å
Total Rg total_rg16.62 Å
Total atoms total_atoms41560
Residues n_residues2620
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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax62.3 Å
Rg (real space) rg_real16.70 Å
Rg uncertainty (real space) rg_real_error0.50 Å
I(0) (real space) i0_real1.1440e+09
I(0) uncertainty (real space) i0_real_error1.4560e+07
Rg (reciprocal space) rg_reciprocal16.68 Å
I(0) (reciprocal space) i0_reciprocal1144000000.0000
Solution quality estimate total_estimate0.6678
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary16.2 Å
Skewness Skewness skewness0.591
Kurtosis Kurtosis kurtosis-0.095
Angular range angular_range— – 0.4800 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha780400.0000
Real-space data points n_real_points78
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.372; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.563; Smooth: 0.000
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id2jx0A00
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily330 — Nucleotidyltransferases domain 2
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8. Citations (1)

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9. Files and Curves (10)