SAXSdb — 6xa7

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

Protein scribble homolog

Homo sapiens

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 2	Vang-like protein 2 × 1 （Q9ULK5） water × 2	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 2	Vang-like protein 2 × 1 （Q9ULK5） 1,2-ETHANEDIOL × 2 water × 2	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 2	Vang-like protein 2 × 1 （Q9ULK5） 1,2-ETHANEDIOL × 4 water × 2	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 2	Vang-like protein 2 × 1 （Q9ULK5） 1,2-ETHANEDIOL × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	SCRIB_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 6–96； UniProt 860–950 Author chain B； PDBConstruct 6–96； UniProt 860–950 Author chain C； PDBConstruct 6–96； UniProt 860–950 Author chain D； PDBConstruct 6–96； UniProt 860–950

Vang-like protein 2

OrganismNot specified

UniProt Q9ULK5

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 2	Protein scribble homolog × 1 （Q14160） water × 2	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 2	Protein scribble homolog × 1 （Q14160） 1,2-ETHANEDIOL × 2 water × 2	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 2	Protein scribble homolog × 1 （Q14160） 1,2-ETHANEDIOL × 4 water × 2	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 2	Protein scribble homolog × 1 （Q14160） 1,2-ETHANEDIOL × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VANG2_HUMAN
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain E； PDBConstruct 1–8； UniProt 514–521 Author chain F； PDBConstruct 1–8； UniProt 514–521 Author chain G； PDBConstruct 1–8； UniProt 514–521 Author chain H； PDBConstruct 1–8； UniProt 514–521

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	6xa7
Deposition date deposition_date	2020-06-04
Structure title title	Crystal Structure of Human Scribble PDZ2:Vangl2 complex
Keywords keywords	Cell polarity, Scribble, CYTOSOLIC PROTEIN; CYTOSOLIC 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.

6xa7__assembly_4__model_1

Assembly 4 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

6xa7__assembly_4__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

6xa7__assembly_4__model_1 | P(r) · Pending

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

Rg（Guinier）	13.57 Å
Rg (electron density)	12.00 Å
Total Rg	13.34 Å
Atom count	1372
Residues	97
Excluded volume	12066 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`6xa7__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`6xa7__assembly_2__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`6xa7__assembly_3__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`6xa7__assembly_4__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	Protein scribble homolog
Molecular weight formula_weight	9773.0 kDa
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	5751

GPLGSRHVACLARSERGLGFSIAGGKGSTPYRAGDAGIFVSRIAEGGAAHRAGTLQVGDRVLSINGVDVTEARHDHAVSLLTAASPTIALLLEREA

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 polymer

Description description	Vang-like protein 2
Molecular weight formula_weight	920.0 kDa
Source method src_method	syn
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,F,G,H

RLQSETSV

Entity 3 Entity 3 non-polymer

Description description	1,2-ETHANEDIOL
Molecular weight formula_weight	62.1 kDa
Source method src_method	nat
Copy count entity_count	7

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	132

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6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id	6xa7A01
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	6xa7B01
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	6xa7C01
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	6xa7D01
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

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Unit-cell length a length_a	78.047 Å
Unit-cell length b length_b	60.765 Å
Unit-cell length c length_c	96.017 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	106.48 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	16

Space group space_group	I 1 2 1
Space-group number int_tables_number	5
Crystal system crystal_system	—

Resolution resolution	2.500 Å
Low-resolution limit resolution_low	47.170 Å
R factor r_factor	0.2377
R_work r_work	0.2362
R_free r_free	0.2672

Crystal Structure of Human Scribble PDZ2:Vangl2 complex

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

Protein scribble homolog

State in the Current Structure

Other States of the Same Protein in the Database

Vang-like protein 2

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

6xa7__assembly_4__model_1

6xa7__assembly_4__model_1 | I(q)

6xa7__assembly_4__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

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

7. Citations (1)

Crystal Structure of Human Scribble PDZ2:Vangl2 complex

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

Protein scribble homolog

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Vang-like protein 2

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

6xa7__assembly_4__model_1

6xa7__assembly_4__model_1 | I(q)

6xa7__assembly_4__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

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

7. Citations (1)