SAXSdb — 1bo1

▼

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

PROTEIN (PHOSPHATIDYLINOSITOL PHOSPHATE KINASE IIBETA)

Homo sapiens

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

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PI52B_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–416； UniProt 1–416 Author chain B； PDBConstruct 1–416； UniProt 1–416

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id	1bo1
Deposition date deposition_date	1998-08-02
Structure title title	PHOSPHATIDYLINOSITOL PHOSPHATE KINASE TYPE II BETA
Keywords keywords	LIPID SIGNALING, TRANSFERASE; TRANSFERASE
Experimental Method method	X-RAY DIFFRACTION

▼

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.

1bo1__assembly_1__model_1

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

Download this curve (.dat)

1bo1__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1bo1__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	34.04 Å
Rg (electron density)	33.68 Å
Total Rg	34.09 Å
Atom count	5282
Residues	644
Excluded volume	93916 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1bo1__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download

▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Description description	PROTEIN (PHOSPHATIDYLINOSITOL PHOSPHATE KINASE IIBETA)
Molecular weight formula_weight	47447.9 kDa
EC 编号 ec_number	2.7.1.68
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	5301

MSSNCTSTTAVAVAPLSASKTKTKKKHFVCQKVKLFRASEPILSVLMWGVNHTINELSNVPVPVMLMPDDFKAYSKIKVDNHLFNKENLPSRFKFKEYCPMVFRNLRERFGIDDQDYQNSVTRSAPINSDSQGRCGTRFLTTYDRRFVIKTVSSEDVAEMHNILKKYHQFIVECHGNTLLPQFLGMYRLTVDGVETYMVVTRNVFSHRLTVHRKYDLKGSTVAREASDKEKAKDLPTFKDNDFLNEGQKLHVGEESKKNFLEKLKRDVEFLAQLKIMDYSLLVGIHDVDRAEQEEMEVEERAEDEECENDGVGGNLLCSYGTPPDSPGNLLSFPRFFGPGEFDPSVDVYAMKSHESSPKKEVYFMAIIDILTPYDTKKKAAHAAKTVKHGAGAEISTVNPEQYSKRFNEFMSNILT

Source Source

Source organism organism	Homo sapiens
Common name common_name	human
NCBI taxonomy ID ncbi_taxonomy_id	9606
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	19

▼

6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d1bo1a_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.143 — SAICAR synthase-like
Superfamily Superfamily superfamily	d.143.1 — SAICAR synthase-like
Family Family family	d.143.1.2 — Phosphatidylinositol phosphate kinase IIbeta, PIPK IIbeta

Domain ID domain_id	d1bo1b_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.143 — SAICAR synthase-like
Superfamily Superfamily superfamily	d.143.1 — SAICAR synthase-like
Family Family family	d.143.1.2 — Phosphatidylinositol phosphate kinase IIbeta, PIPK IIbeta

CATH v4.4 (4 domains)

Domain ID domain_id	1bo1A01
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	800 — Phosphatidylinositol Phosphate Kinase II Beta
Homologous superfamily homologous superfamily	10 — Phosphatidylinositol Phosphate Kinase II Beta

Domain ID domain_id	1bo1A02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	810 — Phosphatidylinositol Phosphate Kinase Iibeta; Chain: A, domain 2
Homologous superfamily homologous superfamily	10 — 2-Layer Sandwich

Domain ID domain_id	1bo1B01
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	800 — Phosphatidylinositol Phosphate Kinase II Beta
Homologous superfamily homologous superfamily	10 — Phosphatidylinositol Phosphate Kinase II Beta

Domain ID domain_id	1bo1B02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	810 — Phosphatidylinositol Phosphate Kinase Iibeta; Chain: A, domain 2
Homologous superfamily homologous superfamily	10 — 2-Layer Sandwich

▶

Unit-cell length a length_a	109.915 Å
Unit-cell length b length_b	182.403 Å
Unit-cell length c length_c	106.472 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	16

Space group space_group	C 2 2 21
Space-group number int_tables_number	20
Crystal system crystal_system	—

Resolution resolution	3.000 Å
Low-resolution limit resolution_low	6.000 Å
R factor r_factor	0.2290
R_work r_work	0.2290
R_free r_free	0.2990

PHOSPHATIDYLINOSITOL PHOSPHATE KINASE TYPE II BETA

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

PROTEIN (PHOSPHATIDYLINOSITOL PHOSPHATE KINASE IIBETA)

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

1bo1__assembly_1__model_1

1bo1__assembly_1__model_1 | I(q)

1bo1__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 (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

CATH v4.4 (4 domains)

7. Citations (1)

PHOSPHATIDYLINOSITOL PHOSPHATE KINASE TYPE II BETA

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

PROTEIN (PHOSPHATIDYLINOSITOL PHOSPHATE KINASE IIBETA)

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

1bo1__assembly_1__model_1

1bo1__assembly_1__model_1 | I(q)

1bo1__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 (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

CATH v4.4 (4 domains)

7. Citations (1)