SAXSdb — 1b28

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

PROTEIN (REGULATORY PROTEIN ARC)

Enterobacteria phage P22

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 × 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 1–53 Chain B； UniProt 1–53	Mutation：CHAIN A: R31M,E36Y,R40L, CHAIN B: R131M,E136Y,R140L	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 4.5；303 K；Ionic strength (raw mmCIF value) 50 mM KPI, 150 mM NACL	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 1B28	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1ARQ RELAXATION MATRIX REFINEMENT OF THE SOLUTION STRUCTURE OF THE ARC REPRESSOR Deposited 1993-08-24	Different mutation/modification Different experimental conditions	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Not recorded	No recorded non-water small molecule	SOLUTION NMR mmCIF provides none of the parsed conditions	Resolution not provided
1ARR RELAXATION MATRIX REFINEMENT OF THE SOLUTION STRUCTURE OF THE ARC REPRESSOR Deposited 1993-08-24	Different mutation/modification Different experimental conditions	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Not recorded	No recorded non-water small molecule	SOLUTION NMR mmCIF provides none of the parsed conditions	Resolution not provided
1BAZ ARC REPRESSOR MUTANT PHE10VAL Deposited 1998-04-21	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 1–53（53 aa） Chain B 1–53（53 aa） Chain C 1–53（53 aa） Chain D 1–53（53 aa）	Mutation：F10V Mutation：F10V Mutation：F10V Mutation：F10V	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions pH 8；PROTEIN WAS CRYSTALLIZED FROM 40-45% SATURATED AMMONIUM PHOSPHATE, PH 8.0, BY MACROSEEDING USING CRYSTALS OF THE WILD TYPE PROTEIN	Resolution 1.90 Å R-free 0.273
1BDT WILD TYPE GENE-REGULATING PROTEIN ARC/DNA COMPLEX Deposited 1998-05-11	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Homooligomer；Protein × 4 PDB declaration: hexameric	Chain A 1–53（53 aa） Chain B 1–53（53 aa） Chain C 1–53（53 aa） Chain D 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions pH 4.5；pH 4.5	Resolution 2.50 Å R-free 0.282
1MYK CRYSTAL STRUCTURE, FOLDING, AND OPERATOR BINDING OF THE HYPERSTABLE ARC REPRESSOR MUTANT PL8 Deposited 1994-10-12	Different mutation/modification Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 2.40 Å R-free 0.277
1MYL SUBSTITUTING HYDROPHOBIC RESIDUES FOR A BURIED SALT BRIDGE ENHANCES PROTEIN STABILITY BUT DOES NOT REDUCE CONFORMATIONAL SPECIFICITY Deposited 1994-10-06	Different mutation/modification Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 2.40 Å R-free 0.293
1MYL SUBSTITUTING HYDROPHOBIC RESIDUES FOR A BURIED SALT BRIDGE ENHANCES PROTEIN STABILITY BUT DOES NOT REDUCE CONFORMATIONAL SPECIFICITY Deposited 1994-10-06	Different mutation/modification Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain E 1–53（53 aa） Chain F 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 2.40 Å R-free 0.293
1MYL SUBSTITUTING HYDROPHOBIC RESIDUES FOR A BURIED SALT BRIDGE ENHANCES PROTEIN STABILITY BUT DOES NOT REDUCE CONFORMATIONAL SPECIFICITY Deposited 1994-10-06	Different mutation/modification Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain C 1–53（53 aa） Chain D 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 2.40 Å R-free 0.293
1NLA Solution Structure of Switch Arc, a Mutant with 3(10) Helices Replacing a Wild-Type Beta-Ribbon Deposited 2003-01-06	Different mutation/modification Different experimental conditions	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Mutation：N11L, L12N Mutation：N11L, L12N	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 4.8；303 K；Ionic strength (raw mmCIF value) 20mM phosphate；Pressure ambient NMR measurement conditions pH 4.8；303 K；Ionic strength (raw mmCIF value) 20 mM phosphate；Pressure ambient NMR measurement conditions pH 4.67；303 K；Ionic strength (raw mmCIF value) 20 mM phosphate, 150 mM KCl；Pressure ambient NMR sample composition 4 mM uniform 15N-labelled Arc repressor NL11/LN12 (Switch Arc) \| 90% H2O/10% D2O NMR sample composition 7.5 mM 10% 13C-labelled Arc repressor NL11/LN12 (Switch Arc) \| 90% H2O, 10% D20 NMR sample composition 5 mM uniform 15N-labelled Arc repressor NL11/LN12 (Switch Arc) \| 100% D2O	Resolution not provided
1PAR DNA RECOGNITION BY BETA-SHEETS IN THE ARC REPRESSOR-OPERATOR CRYSTAL STRUCTURE Deposited 1994-03-22	Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein–DNA Homooligomer；Protein × 4 PDB declaration: hexameric	Chain A 1–53（53 aa） Chain B 1–53（53 aa） Chain C 1–53（53 aa） Chain D 1–53（53 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.4；pH 7.40, VAPOR DIFFUSION, HANGING DROP	Resolution 2.60 Å
1QTG AVERAGED NMR MODEL OF SWITCH ARC, A DOUBLE MUTANT OF ARC REPRESSOR Deposited 1999-06-27	Different mutation/modification Different experimental conditions	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–53（53 aa） Chain B 1–53（53 aa）	Mutation：N11L, L12N Mutation：N11L, L12N	No recorded non-water small molecule	SOLUTION NMR mmCIF provides none of the parsed conditions	Resolution not provided

9 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	RARC_BPP22
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–53； UniProt 1–53 Author chain B； PDBConstruct 1–53； UniProt 1–53

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	1b28
Deposition date deposition_date	1998-12-05
Structure title title	ARC REPRESSOR MYL MUTANT FROM SALMONELLA BACTERIOPHAGE P22
Keywords keywords	TRANSCRIPTION REGULATION, HYPERSTABLE MUTANT, ARC REPRESSOR, TRANSLATION-REGULATION COMPLEX; TRANSLATION/REGULATION
Experimental Method method	SOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier	14.46 Å
Radius of gyration Rg (electron density) rg_electron	13.85 Å
Forward intensity I(0) i0	417779000.00
Molecular weight molecular_weight	173500.0 kDa
Excluded volume excluded_volume	218090 Å³
Envelope volume envelope_volume	31282 Å³
Hydration-shell volume shell_volume	15992 Å³
Envelope diameter envelope_diameter	54.9 Å
Shell Rg shell_rg	22.56 Å
Envelope Rg envelope_rg	16.78 Å
Shape Rg shape_rg	13.72 Å
Total Rg total_rg	14.52 Å
Total atoms total_atoms	24528
Residues n_residues	1484
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	47.6 Å
Rg (real space) rg_real	14.36 Å
Rg uncertainty (real space) rg_real_error	0.35 Å
I(0) (real space) i0_real	4.1780e+08
I(0) uncertainty (real space) i0_real_error	4.5830e+06
Rg (reciprocal space) rg_reciprocal	14.37 Å
I(0) (reciprocal space) i0_reciprocal	417800000.0000
Solution quality estimate total_estimate	0.7886
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	3
Primary peak position r_peak_primary	17.5 Å
Skewness Skewness skewness	0.055
Kurtosis Kurtosis kurtosis	-0.342
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	245100.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.751; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.995; 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) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d1b28a_
Class class	a — All alpha proteins
Fold Fold fold	a.43 — Ribbon-helix-helix
Superfamily Superfamily superfamily	a.43.1 — Ribbon-helix-helix
Family Family family	a.43.1.1 — Arc/Mnt-like phage repressors

Domain ID domain_id	d1b28b_
Class class	a — All alpha proteins
Fold Fold fold	a.43 — Ribbon-helix-helix
Superfamily Superfamily superfamily	a.43.1 — Ribbon-helix-helix
Family Family family	a.43.1.1 — Arc/Mnt-like phage repressors

CATH v4.4 (2 domains)

Domain ID domain_id	1b28A00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	1220 — Arc Repressor Mutant
Homologous superfamily homologous superfamily	10 — Met repressor-like

Domain ID domain_id	1b28B00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	1220 — Arc Repressor Mutant
Homologous superfamily homologous superfamily	10 — Met repressor-like

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8. Citations (2)

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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	1

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

Description description	PROTEIN (REGULATORY PROTEIN ARC)
Molecular weight formula_weight	6202.3 kDa
Mutation mutation	CHAIN A: R31M,E36Y,R40L, CHAIN B: R131M,E136Y,R140L
Source method src_method	man
Copy count entity_count	2

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	24528

来源生物 organism	Enterobacteria phage P22
NCBI Class编号 ncbi_taxonomy_id	10754
宿主生物 host_organism	Escherichia coli

ARC REPRESSOR MYL MUTANT FROM SALMONELLA BACTERIOPHAGE P22

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

PROTEIN (REGULATORY PROTEIN ARC)

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

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

8. Citations (2)

9. Files and Curves (10)

Files (7)

Curves (3)

fit	/app/data/saxs_computation/b2/1b28/1b28.fit
pddf	/app/data/pr_computation/b2/1b28/1b28.pr.out
profile	/app/data/saxs_computation/b2/1b28/1b28.dat