SAXSdb — 1bwd

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

PROTEIN (INOSAMINE-PHOSPHATE AMIDINOTRANSFERASE)

Streptomyces griseus

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 1–347 Chain B； UniProt 1–347	Not recorded	No other associated polymer	X-RAY DIFFRACTION X-ray crystallization conditions：pH 5；20% PEG 4000, 0.1 M SODIUM CITRAT BUFFER (PH 5.0), 0.2 M AMMONIUM ACETATE	Resolution 3.10 Å R-free 0.265

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.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence

UniProt name	STRB1_STRGR
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–348； UniProt 1–347 Author chain B； PDBConstruct 1–348； UniProt 1–347

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	1bwd
Deposition date deposition_date	1998-09-23
Structure title title	INOSAMINE-PHOSPHATE AMIDINOTRANSFERASE STRB1 FROM STREPTOMYCES GRISEUS
Keywords keywords	AMIDINOTRANSFERASE, STREPTOMYCIN, TRANSFERASE; TRANSFERASE
Experimental Method method	X-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier	35.33 Å
Radius of gyration Rg (electron density) rg_electron	35.10 Å
Forward intensity I(0) i0	93334600.00
Molecular weight molecular_weight	77342.0 kDa
Excluded volume excluded_volume	96571 Å³
Envelope volume envelope_volume	124080 Å³
Hydration-shell volume shell_volume	29436 Å³
Envelope diameter envelope_diameter	113.8 Å
Shell Rg shell_rg	41.55 Å
Envelope Rg envelope_rg	34.46 Å
Shape Rg shape_rg	35.10 Å
Total Rg total_rg	35.53 Å
Total atoms total_atoms	5455
Residues n_residues	696
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	111.2 Å
Rg (real space) rg_real	35.58 Å
Rg uncertainty (real space) rg_real_error	1.12 Å
I(0) (real space) i0_real	9.3330e+07
I(0) uncertainty (real space) i0_real_error	1.6550e+06
Rg (reciprocal space) rg_reciprocal	35.43 Å
I(0) (reciprocal space) i0_reciprocal	93320000.0000
Solution quality estimate total_estimate	0.7351
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	3
Primary peak position r_peak_primary	27.2 Å
Skewness Skewness skewness	0.333
Kurtosis Kurtosis kurtosis	-0.948
Angular range angular_range	— – 0.2250 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	57820000.0000
Real-space data points n_real_points	46
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.481; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.638; Smooth: 0.470

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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	d1bwda_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.126 — Pentein, beta/alpha-propeller
Superfamily Superfamily superfamily	d.126.1 — Pentein
Family Family family	d.126.1.2 — Amidinotransferase

Domain ID domain_id	d1bwdb_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.126 — Pentein, beta/alpha-propeller
Superfamily Superfamily superfamily	d.126.1 — Pentein
Family Family family	d.126.1.2 — Amidinotransferase

CATH v4.4 (2 domains)

Domain ID domain_id	1bwdA00
Class class	3 — Alpha Beta
Architecture architecture	75 — 5-stranded Propeller
Topology topology	10 — L-arginine/glycine Amidinotransferase; Chain A
Homologous superfamily homologous superfamily	10 — L-arginine/glycine Amidinotransferase; Chain A

Domain ID domain_id	1bwdB00
Class class	3 — Alpha Beta
Architecture architecture	75 — 5-stranded Propeller
Topology topology	10 — L-arginine/glycine Amidinotransferase; Chain A
Homologous superfamily homologous superfamily	10 — L-arginine/glycine Amidinotransferase; Chain A

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8. Citations (1)

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Unit-cell length a length_a	121.300 Å
Unit-cell length b length_b	121.300 Å
Unit-cell length c length_c	63.740 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	8

Space group space_group	P 43
Space-group number int_tables_number	78
Crystal system crystal_system	—

Resolution resolution	3.100 Å
Low-resolution limit resolution_low	10.000 Å
R factor r_factor	—
R_work r_work	0.1970
R_free r_free	0.2650

Description description	PROTEIN (INOSAMINE-PHOSPHATE AMIDINOTRANSFERASE)
Molecular weight formula_weight	38738.6 kDa
EC 编号 ec_number	2.1.4.2
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	5455

INOSAMINE-PHOSPHATE AMIDINOTRANSFERASE STRB1 FROM STREPTOMYCES GRISEUS

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

PROTEIN (INOSAMINE-PHOSPHATE AMIDINOTRANSFERASE)

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

Diffraction experiment Diffraction

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 (1)

9. Files and Curves (10)

Files (7)

Curves (3)

来源生物 organism	Streptomyces griseus
NCBI Class编号 ncbi_taxonomy_id	1911
宿主生物 host_organism	Escherichia coli

fit	/app/data/saxs_computation/bw/1bwd/1bwd.fit
pddf	/app/data/pr_computation/bw/1bwd/1bwd.pr.out
profile	/app/data/saxs_computation/bw/1bwd/1bwd.dat