1vph

CRYSTAL STRUCTURE OF a YbjQ-like protein of unknown function (SSO2532) FROM SULFOLOBUS SOLFATARICUS P2 AT 1.76 A RESOLUTION

Method: X-RAY DIFFRACTION

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

hypothetical protein SSO2532

Sulfolobus solfataricus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 3	POTASSIUM ION × 2 PHOSPHATE ION × 5 CHLORIDE ION × 1 water × 3	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 3	POTASSIUM ION × 2 PHOSPHATE ION × 6 1,2-ETHANEDIOL × 1 water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q97VS8_SULSO
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 13–149； UniProt 1–137 Author chain B； PDBConstruct 13–149； UniProt 1–137 Author chain C； PDBConstruct 13–149； UniProt 1–137 Author chain D； PDBConstruct 13–149； UniProt 1–137 Author chain E； PDBConstruct 13–149； UniProt 1–137 Author chain F； PDBConstruct 13–149； UniProt 1–137

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	1vph
Deposition date deposition_date	2004-11-03
Structure title title	CRYSTAL STRUCTURE OF a YbjQ-like protein of unknown function (SSO2532) FROM SULFOLOBUS SOLFATARICUS P2 AT 1.76 A RESOLUTION
Keywords keywords	;YBJQ-LIKE FOLD, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI, UNKNOWN FUNCTION ;; UNKNOWN FUNCTION
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.

1vph__assembly_1__model_1

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

Download this curve (.dat)

1vph__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1vph__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	21.67 Å
Rg (electron density)	20.11 Å
Total Rg	21.00 Å
Atom count	3350
Residues	419
Excluded volume	59209 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1vph__assembly_1__model_1`	trimeric （3）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1vph__assembly_2__model_1`	trimeric （3）	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 (6)

Entity 1 Entity 1 polymer

Description description	hypothetical protein SSO2532
Molecular weight formula_weight	17057.4 kDa
Source method src_method	man
Copy count entity_count	6

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F
Atom count atom_count	7049

MGSDKIHHHHHHMKVYFDDIYVSTARQFELVDITDQVEQIVEKSGIKNGICLIFVAHSTAAIVANEHERGLMEDILTKIKEFTEPSRSWKHNLIDDNAHAHLGATFLGAERVFPVREGKLVRGTWQNIFLVELDGPRSERHITVEILGE

Source Source

Source organism organism	Sulfolobus solfataricus
NCBI taxonomy ID ncbi_taxonomy_id	273057
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	POTASSIUM ION
Molecular weight formula_weight	39.1 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 3 Entity 3 non-polymer

Description description	PHOSPHATE ION
Molecular weight formula_weight	95.0 kDa
Source method src_method	syn
Copy count entity_count	11

Entity 4 Entity 4 non-polymer

Description description	CHLORIDE ION
Molecular weight formula_weight	35.5 kDa
Source method src_method	syn
Copy count entity_count	1

Entity 5 Entity 5 non-polymer

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

Entity 6 Entity 6 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	286

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6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (11 domains)

Domain ID domain_id	d1vpha1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vpha2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d1vphb_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vphc1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vphc2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d1vphd1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vphd2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d1vphe1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vphe2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d1vphf1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.273 — YjbQ-like
Superfamily Superfamily superfamily	d.273.1 — YjbQ-like
Family Family family	d.273.1.1 — YjbQ-like

Domain ID domain_id	d1vphf2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

CATH v4.4 (6 domains)

Domain ID domain_id	1vphA00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

Domain ID domain_id	1vphB00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

Domain ID domain_id	1vphC00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

Domain ID domain_id	1vphD00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

Domain ID domain_id	1vphE00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

Domain ID domain_id	1vphF00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	460 — YjbQ-like

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Unit-cell length a length_a	79.860 Å
Unit-cell length b length_b	92.180 Å
Unit-cell length c length_c	114.130 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	24

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	1.764 Å
Low-resolution limit resolution_low	16.220 Å
R factor r_factor	0.1908
R_work r_work	0.1891
R_free r_free	0.2217

CRYSTAL STRUCTURE OF a YbjQ-like protein of unknown function (SSO2532) FROM SULFOLOBUS SOLFATARICUS P2 AT 1.76 A RESOLUTION

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

hypothetical protein SSO2532

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

1vph__assembly_1__model_1

1vph__assembly_1__model_1 | I(q)

1vph__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (11 domains)

CATH v4.4 (6 domains)

7. Citations (1)

CRYSTAL STRUCTURE OF a YbjQ-like protein of unknown function (SSO2532) FROM SULFOLOBUS SOLFATARICUS P2 AT 1.76 A RESOLUTION

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

hypothetical protein SSO2532

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

1vph__assembly_1__model_1

1vph__assembly_1__model_1 | I(q)

1vph__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (11 domains)

CATH v4.4 (6 domains)

7. Citations (1)