SAXSdb — 3bog

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

6.5 kDa glycine-rich antifreeze protein

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	water × 2	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 2	UNKNOWN LIGAND × 1 water × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q38PT6_9HEXA
Isoform	—
PDB entities	1, 2
Chains and sequence ranges	Author chain A； PDBConstruct 1–81； UniProt 23–103 Author chain B； PDBConstruct 1–81； UniProt 23–103 Author chain C； PDBConstruct 1–81； UniProt 23–103 Author chain D； PDBConstruct 1–81； UniProt 23–103

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	3bog
Deposition date deposition_date	2007-12-17
Structure title title	Snow Flea Antifreeze Protein Quasi-racemate
Keywords keywords	quasi-racemate, sfAFP, mirror image proteins, racemic protein crystallography, ANTIFREEZE PROTEIN; ANTIFREEZE PROTEIN
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3bog__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3bog__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3bog__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	16.30 Å
Rg (electron density)	15.95 Å
Total Rg	16.84 Å
Atom count	894
Residues	117
Excluded volume	15022 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3bog__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`3bog__assembly_2__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Description description	6.5 kDa glycine-rich antifreeze protein
Molecular weight formula_weight	6582.8 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	2303

CKGADGAHGVUGCPGTAGAAGSVGGPGCDGGHGGNGGNGNPGCAGGVGGAGGASGGTGVGGRGGKGGSGTPKGADGAPGAP

Entity 2 Entity 2 polymer

Description description	6.5 kDa glycine-rich antifreeze protein
Molecular weight formula_weight	6486.8 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	C,D

CKGADGAHGVNGCPGTAGAAGSVGGPGCDGGHGGNGGNGNPGCAGGVGGAGGASGGTGVGGRGGKGGSGTPKGADGAPGAP

Entity 3 Entity 3 non-polymer

Description description	UNKNOWN LIGAND
Source method src_method	syn
Copy count entity_count	1

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	456

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Unit-cell length a length_a	28.640 Å
Unit-cell length b length_b	32.359 Å
Unit-cell length c length_c	59.699 Å
Unit-cell angle α angle_alpha	88.62 °
Unit-cell angle β angle_beta	89.31 °
Unit-cell angle γ angle_gamma	72.84 °
Molecules per unit cell Z z_pdb	2

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

Resolution resolution	1.200 Å
Low-resolution limit resolution_low	27.360 Å
R factor r_factor	0.1620
R_work r_work	0.1600
R_free r_free	0.1920

Snow Flea Antifreeze Protein Quasi-racemate

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

6.5 kDa glycine-rich antifreeze protein

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

3bog__assembly_1__model_1

3bog__assembly_1__model_1 | I(q)

3bog__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (1)

Snow Flea Antifreeze Protein Quasi-racemate

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

6.5 kDa glycine-rich antifreeze protein

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

3bog__assembly_1__model_1

3bog__assembly_1__model_1 | I(q)

3bog__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (1)