SAXSdb — 4y7k

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

Large conductance mechanosensitive channel protein,Riboflavin synthase

Methanocaldococcus jannaschii DSM 2661

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 5	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	RISC_METJA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 121–275； UniProt 2–156 Author chain B； PDBConstruct 121–275； UniProt 2–156 Author chain C； PDBConstruct 121–275； UniProt 2–156 Author chain D； PDBConstruct 121–275； UniProt 2–156 Author chain E； PDBConstruct 121–275； UniProt 2–156

Large conductance mechanosensitive channel protein,Riboflavin synthase

Methanocaldococcus jannaschii DSM 2661

UniProt Q8TNK0

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Homooligomer	Protein 5	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8TNK0_METAC
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 21–120； UniProt 1–101 Author chain B； PDBConstruct 21–120； UniProt 1–101 Author chain C； PDBConstruct 21–120； UniProt 1–101 Author chain D； PDBConstruct 21–120； UniProt 1–101 Author chain E； PDBConstruct 21–120； UniProt 1–101

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	4y7k
Deposition date deposition_date	2015-02-15
Structure title title	Structure of an archaeal mechanosensitive channel in closed state
Keywords keywords	mechanosensitive channel, mechanosensation, membrane protein, transport protein; MEMBRANE PROTEIN,TRANSPORT 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.

4y7k__assembly_1__model_1

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

Download this curve (.dat)

4y7k__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

4y7k__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	35.72 Å
Rg (electron density)	35.23 Å
Total Rg	35.47 Å
Atom count	9217
Residues	1216
Excluded volume	168900 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`4y7k__assembly_1__model_1`	pentameric （5）	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 (1)

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6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id	4y7kA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

Domain ID domain_id	4y7kD01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

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Unit-cell length a length_a	87.292 Å
Unit-cell length b length_b	140.368 Å
Unit-cell length c length_c	182.544 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	20

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

Resolution resolution	3.500 Å
Low-resolution limit resolution_low	42.000 Å
R factor r_factor	0.2609
R_work r_work	0.2595
R_free r_free	0.2871

Description description	Large conductance mechanosensitive channel protein,Riboflavin synthase
Molecular weight formula_weight	30609.0 kDa
Mutation mutation	K101 deletion
Source method src_method	man
Copy count entity_count	5

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E
Atom count atom_count	9218

Structure of an archaeal mechanosensitive channel in closed state

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

Large conductance mechanosensitive channel protein,Riboflavin synthase

State in the Current Structure

Other States of the Same Protein in the Database

Large conductance mechanosensitive channel protein,Riboflavin synthase

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

4y7k__assembly_1__model_1

4y7k__assembly_1__model_1 | I(q)

4y7k__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 (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)

Source organism organism	Methanocaldococcus jannaschii DSM 2661
NCBI taxonomy ID ncbi_taxonomy_id	243232
Host organism host_organism	Escherichia coli

Structure of an archaeal mechanosensitive channel in closed state

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

Large conductance mechanosensitive channel protein,Riboflavin synthase

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Large conductance mechanosensitive channel protein,Riboflavin synthase

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

4y7k__assembly_1__model_1

4y7k__assembly_1__model_1 | I(q)

4y7k__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 (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)