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4tva

Universal Pathway for Post-Transfer Editing Reactions: Insight from Crystal structure of TthPheRS with Puromycine

Method: X-RAY DIFFRACTION Dmax: 141.3 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Phenylalanine--tRNA ligase alpha subunit

OrganismNot specified

UniProt P27001

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 × 4 PDB declaration: tetrameric（4） Consistent with protein copy count Chain A； UniProt 1–350 Not recorded Phenylalanine--tRNA ligase beta subunit × 2 （P27002） PHE PHENYLALANINE × 2 PUY PUROMYCIN × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.7；277 K；PROTEIN WAS CRYSTALLIZED FROM AMMONIUM SULFATE 28% OF SATURATION, 20 MM IMIDAZOLE, PH 7.7, 10 MM MGCL2, 1 MM NAN3 Resolution 2.60 Å R-free 0.258

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 4TVA Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1B70 PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINE Deposited 1999-01-26 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 1–350（350 aa） Fragment：ALPHA SUBUNIT
Not recorded MG MAGNESIUM ION × 2 PHE PHENYLALANINE × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；313 K；CRYSTALS WERE GROWN BY THE HANGING-DROP TECHNIQUE AT 4O C WITH AMMONIUM SULFATE AS PRECIPITANT. EACH DROPLET OF THE PHENYLALANYL-TRNA SYNTHETASE SOLUTION (10 M L) AT A PROTEIN CONCENTRTION OF 3 TO 5 MG PER ML IN 20 AMM IMIDASOL-HCL BUFFER (PH 7.8), 1 MM MGCL2, 1 MM NAN3 AND 15% SATURATED AMMONIUM SULFATE WAS EQUILIBRATED WITH 1 ML 25 TO 30% SATURATED AMMONIUM SULFATE IN THE SAME BUFFER. CRYSTALS APPEARED AFTER ONE TO TWO WEEKS AND GREW UP TO MAXIMAL DIMENSIONS (0.4MMX0.4MMX0.25 MM) IN A FEW WEEKS., pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 313K
Resolution 2.70 Å R-free 0.256
1B7Y PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINYL-ADENYLATE Deposited 1999-01-26 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 1–350（350 aa）
Not recorded MG MAGNESIUM ION × 2 FYA ADENOSINE-5'-[PHENYLALANINOL-PHOSPHATE] × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；313 K；HANGING-DROP TECHNIQUE AT 4O C WITH (NH4)2SO4 AS PRECIPITANT. EACH DROPLET OF THE PHENYLALANYL-TRNA SYNTHETASE SOLUTION (10 microliters) AT PROTEIN CONCENTRATION OF 3 TO 5 MG PER ML IN 20 MM IMIDASOL-HCL BUFFER (PH 7.8), 1 MM MGCL2, 1 MM NAN3 AND 15% SATURATED (NH4)2SO4 IN THE SAME BUFFER. CRYSTALS APPEARED AFTER ONE TO TWO WEEKS AND GREW UP TO THE MAXIMAL DIMENSIONS OF 0.4X0.4X0.25 MM IN A FEW WEEKS, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 313K
Resolution 2.50 Å R-free 0.267
1EIY THE CRYSTAL STRUCTURE OF PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS COMPLEXED WITH COGNATE TRNAPHE Deposited 2000-02-29 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Heteromer；Protein × 4 PDB declaration: hexameric
Chain A 1–350（350 aa） Fragment：ALPHA CHAIN
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；293 K；ammonium sulphate, magnesium sulphate, pH 7.2, VAPOR DIFFUSION, HANGING DROP at 293K
Resolution 3.30 Å R-free 0.287
2AKW Crystal Structure of T.Thermophilus Phenylalanyl-tRNA synthetase complexed with p-Cl-Phenylalanine Deposited 2005-08-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 85–350（266 aa）
Not recorded MN MANGANESE (II) ION × 2 200 4-CHLORO-L-PHENYLALANINE × 2 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20mM Imidazole-HCl (pH 7.2), 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.80 Å R-free 0.234
2ALY Crystal Structure of T.Thermophilus Phenylalanyl-tRNA synthetase complexed with 5'-O-[N-(L-tyrosyl)sulphamoyl]adenosine Deposited 2005-08-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 85–350（266 aa）
Not recorded MN MANGANESE (II) ION × 2 YSA 5'-O-[N-(L-TYROSYL)SULFAMOYL]ADENOSINE × 2 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20mM Imidazole-HCl (pH 7.2), 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.60 Å R-free 0.246
2AMC Crystal structure of Phenylalanyl-tRNA synthetase complexed with L-tyrosine Deposited 2005-08-09 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 85–350（266 aa） Fragment：residues 85-350
Not recorded MG MAGNESIUM ION × 2 TYR TYROSINE × 4 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20 mM Imidazole-HCl, pH 7.2, 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.70 Å R-free 0.255
2IY5 PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS complexed with tRNA and a phenylalanyl-adenylate analog Deposited 2006-07-12 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Heteromer；Protein × 4 PDB declaration: hexameric
Chain A 1–350（350 aa）
Not recorded FYA ADENOSINE-5'-[PHENYLALANINOL-PHOSPHATE] × 2 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；277 K；20 MM IMIDAZOLE-HCL, PH 7.8, 1 MM MGCL2, 5 MM 2-MERCAPTOETHANOL AND 1 MM NAN3
Resolution 3.10 Å R-free 0.299
3HFZ Crystal structure of Thermus thermophilus Phenylalanyl-tRNA synthetase complexed with m-tyrosine Deposited 2009-05-13 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 1–350（350 aa）
Not recorded MTY META-TYROSINE × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；292 K；30% (NH4)2SO4, 0.02M IMIDAZOLE-HCL, 0.001M magnesium chloride, m-tyrosine, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Resolution 2.90 Å R-free 0.282
3TEH Crystal structure of Thermus thermophilus Phenylalanyl-tRNA synthetase complexed with L-dopa Deposited 2011-08-14 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 1–350（350 aa）
Not recorded DAH 3,4-DIHYDROXYPHENYLALANINE × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；292 K；30% (NH4)2SO4, 0.02M IMIDAZOLE-HCL, 0.001M magnesium chloride, L-dopa, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Resolution 2.85 Å R-free 0.297

9 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name SYFA_THETH
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–350； UniProt 1–350

Phenylalanine--tRNA ligase beta subunit

OrganismNot specified

UniProt P27002

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 × 4 PDB declaration: tetrameric（4） Consistent with protein copy count Chain B； UniProt 1–785 Not recorded Phenylalanine--tRNA ligase alpha subunit × 2 （P27001） PHE PHENYLALANINE × 2 PUY PUROMYCIN × 2 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.7；277 K；PROTEIN WAS CRYSTALLIZED FROM AMMONIUM SULFATE 28% OF SATURATION, 20 MM IMIDAZOLE, PH 7.7, 10 MM MGCL2, 1 MM NAN3 Resolution 2.60 Å R-free 0.258

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 4TVA Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1B70 PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINE Deposited 1999-01-26 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa） Fragment：BETA SUBUNIT
Not recorded MG MAGNESIUM ION × 2 PHE PHENYLALANINE × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；313 K；CRYSTALS WERE GROWN BY THE HANGING-DROP TECHNIQUE AT 4O C WITH AMMONIUM SULFATE AS PRECIPITANT. EACH DROPLET OF THE PHENYLALANYL-TRNA SYNTHETASE SOLUTION (10 M L) AT A PROTEIN CONCENTRTION OF 3 TO 5 MG PER ML IN 20 AMM IMIDASOL-HCL BUFFER (PH 7.8), 1 MM MGCL2, 1 MM NAN3 AND 15% SATURATED AMMONIUM SULFATE WAS EQUILIBRATED WITH 1 ML 25 TO 30% SATURATED AMMONIUM SULFATE IN THE SAME BUFFER. CRYSTALS APPEARED AFTER ONE TO TWO WEEKS AND GREW UP TO MAXIMAL DIMENSIONS (0.4MMX0.4MMX0.25 MM) IN A FEW WEEKS., pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 313K
Resolution 2.70 Å R-free 0.256
1B7Y PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINYL-ADENYLATE Deposited 1999-01-26 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded MG MAGNESIUM ION × 2 FYA ADENOSINE-5'-[PHENYLALANINOL-PHOSPHATE] × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；313 K；HANGING-DROP TECHNIQUE AT 4O C WITH (NH4)2SO4 AS PRECIPITANT. EACH DROPLET OF THE PHENYLALANYL-TRNA SYNTHETASE SOLUTION (10 microliters) AT PROTEIN CONCENTRATION OF 3 TO 5 MG PER ML IN 20 MM IMIDASOL-HCL BUFFER (PH 7.8), 1 MM MGCL2, 1 MM NAN3 AND 15% SATURATED (NH4)2SO4 IN THE SAME BUFFER. CRYSTALS APPEARED AFTER ONE TO TWO WEEKS AND GREW UP TO THE MAXIMAL DIMENSIONS OF 0.4X0.4X0.25 MM IN A FEW WEEKS, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 313K
Resolution 2.50 Å R-free 0.267
2AKW Crystal Structure of T.Thermophilus Phenylalanyl-tRNA synthetase complexed with p-Cl-Phenylalanine Deposited 2005-08-04 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded MN MANGANESE (II) ION × 2 200 4-CHLORO-L-PHENYLALANINE × 2 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20mM Imidazole-HCl (pH 7.2), 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.80 Å R-free 0.234
2ALY Crystal Structure of T.Thermophilus Phenylalanyl-tRNA synthetase complexed with 5'-O-[N-(L-tyrosyl)sulphamoyl]adenosine Deposited 2005-08-04 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded MN MANGANESE (II) ION × 2 YSA 5'-O-[N-(L-TYROSYL)SULFAMOYL]ADENOSINE × 2 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20mM Imidazole-HCl (pH 7.2), 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.60 Å R-free 0.246
2AMC Crystal structure of Phenylalanyl-tRNA synthetase complexed with L-tyrosine Deposited 2005-08-09 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded MG MAGNESIUM ION × 2 TYR TYROSINE × 4 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；277 K；20 mM Imidazole-HCl, pH 7.2, 27% (NH4)2SO4, 1mM MgCl2, 1mM NaN3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 2.70 Å R-free 0.255
2IY5 PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS complexed with tRNA and a phenylalanyl-adenylate analog Deposited 2006-07-12 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein–RNA Heteromer；Protein × 4 PDB declaration: hexameric
Chain B 1–785（785 aa）
Not recorded FYA ADENOSINE-5'-[PHENYLALANINOL-PHOSPHATE] × 2 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；277 K；20 MM IMIDAZOLE-HCL, PH 7.8, 1 MM MGCL2, 5 MM 2-MERCAPTOETHANOL AND 1 MM NAN3
Resolution 3.10 Å R-free 0.299
3HFZ Crystal structure of Thermus thermophilus Phenylalanyl-tRNA synthetase complexed with m-tyrosine Deposited 2009-05-13 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded MTY META-TYROSINE × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；292 K；30% (NH4)2SO4, 0.02M IMIDAZOLE-HCL, 0.001M magnesium chloride, m-tyrosine, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Resolution 2.90 Å R-free 0.282
3TEH Crystal structure of Thermus thermophilus Phenylalanyl-tRNA synthetase complexed with L-dopa Deposited 2011-08-14 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 1–785（785 aa）
Not recorded DAH 3,4-DIHYDROXYPHENYLALANINE × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；292 K；30% (NH4)2SO4, 0.02M IMIDAZOLE-HCL, 0.001M magnesium chloride, L-dopa, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Resolution 2.85 Å R-free 0.297

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

View Construct and Data Evidence
UniProt name SYFB_THETH
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–785； UniProt 1–785

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 4tva

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4tva
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4tva
Deposition date deposition_date2014-06-26
Structure title titleUniversal Pathway for Post-Transfer Editing Reactions: Insight from Crystal structure of TthPheRS with Puromycine
Keywords keywordspuromycine, editing, tRNA, PheRS, LIGASE-ANTIBIOTIC complex; LIGASE/ANTIBIOTIC
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier38.41 Å
Radius of gyration Rg (electron density) rg_electron38.52 Å
Forward intensity I(0) i0197392000.00
Molecular weight molecular_weight117140.0 kDa
Excluded volume excluded_volume148130 ų
Envelope volume envelope_volume200130 ų
Hydration-shell volume shell_volume45446 ų
Envelope diameter envelope_diameter139.1 Å
Shell Rg shell_rg41.69 Å
Envelope Rg envelope_rg39.32 Å
Shape Rg shape_rg38.51 Å
Total Rg total_rg38.78 Å
Total atoms total_atoms8296
Residues n_residues1051
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 dmax141.3 Å
Rg (real space) rg_real38.86 Å
Rg uncertainty (real space) rg_real_error1.84 Å
I(0) (real space) i0_real1.9740e+08
I(0) uncertainty (real space) i0_real_error3.4740e+06
Rg (reciprocal space) rg_reciprocal38.58 Å
I(0) (reciprocal space) i0_reciprocal197300000.0000
Solution quality estimate total_estimate0.8106
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary37.9 Å
Skewness Skewness skewness0.623
Kurtosis Kurtosis kurtosis-0.007
Angular range angular_range— – 0.2050 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha41580000.0000
Real-space data points n_real_points42
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.649; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.769; Smooth: 0.817
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (5)

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7. Fold Classification (SCOP + CATH) 14 domains

SCOP 2.08 (7 domains)

Domain ID domain_idd4tvaa_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.104 — Class II aaRS and biotin synthetases
Superfamily Superfamily superfamilyd.104.1 — Class II aaRS and biotin synthetases
Family Family familyd.104.1.1 — Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
Domain ID domain_idd4tvab1
Class classa — All alpha proteins
Fold Fold folda.6 — Putative DNA-binding domain
Superfamily Superfamily superfamilya.6.1 — Putative DNA-binding domain
Family Family familya.6.1.1 — Domains B1 and B5 of PheRS-beta, PheT
Domain ID domain_idd4tvab2
Class classb — All beta proteins
Fold Fold foldb.40 — OB-fold
Superfamily Superfamily superfamilyb.40.4 — Nucleic acid-binding proteins
Family Family familyb.40.4.4 — Myf domain
Domain ID domain_idd4tvab3
Class classb — All beta proteins
Fold Fold foldb.153 — PheT/TilS domain
Superfamily Superfamily superfamilyb.153.1 — PheT/TilS domain
Family Family familyb.153.1.1 — B3/B4 domain of PheRS, PheT
Domain ID domain_idd4tvab4
Class classa — All alpha proteins
Fold Fold folda.6 — Putative DNA-binding domain
Superfamily Superfamily superfamilya.6.1 — Putative DNA-binding domain
Family Family familya.6.1.1 — Domains B1 and B5 of PheRS-beta, PheT
Domain ID domain_idd4tvab5
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.104 — Class II aaRS and biotin synthetases
Superfamily Superfamily superfamilyd.104.1 — Class II aaRS and biotin synthetases
Family Family familyd.104.1.1 — Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
Domain ID domain_idd4tvab6
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.13 — Anticodon-binding domain of PheRS
Family Family familyd.58.13.1 — Anticodon-binding domain of PheRS

CATH v4.4 (7 domains)

Domain ID domain_id4tvaA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology930 — BirA Bifunctional Protein; domain 2
Homologous superfamily homologous superfamily10 — Bira Bifunctional Protein; Domain 2
Domain ID domain_id4tvaB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology56 — Phenylalanyl-tRNA Synthetase; Chain B, domain 1
Homologous superfamily homologous superfamily10 —
Domain ID domain_id4tvaB02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id4tvaB03
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology40 — Phenylalanyl-tRNA Synthetase; Chain B, domain 3
Homologous superfamily homologous superfamily10 — Phenylalanyl-trna Synthetase, Chain B, domain 3
Domain ID domain_id4tvaB04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology56 — Phenylalanyl-tRNA Synthetase; Chain B, domain 1
Homologous superfamily homologous superfamily10 —
Domain ID domain_id4tvaB05
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology930 — BirA Bifunctional Protein; domain 2
Homologous superfamily homologous superfamily10 — Bira Bifunctional Protein; Domain 2
Domain ID domain_id4tvaB06
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily380 — Ferrodoxin-fold anticodon-binding domain
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8. Citations (1)

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9. Files and Curves (10)