1r5z

Crystal Structure of Subunit C of V-ATPase

Method: X-RAY DIFFRACTION

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

V-type ATP synthase subunit C

Thermus thermophilus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
2	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
3	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VATC_THET8
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–323； UniProt 1–323 Author chain B； PDBConstruct 1–323； UniProt 1–323 Author chain C； PDBConstruct 1–323； UniProt 1–323

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	1r5z
Deposition date deposition_date	2003-10-14
Structure title title	Crystal Structure of Subunit C of V-ATPase
Keywords keywords	alpha-helix, HYDROLASE; HYDROLASE
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.

1r5z__assembly_1__model_1

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

Download this curve (.dat)

1r5z__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1r5z__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	20.82 Å
Rg (electron density)	19.45 Å
Total Rg	20.36 Å
Atom count	2514
Residues	320
Excluded volume	45013 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1r5z__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1r5z__assembly_2__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`1r5z__assembly_3__model_1`	monomeric （1）	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 (2)

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6. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (3 domains)

Domain ID domain_id	d1r5za_
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.40 — V-type ATP synthase subunit C
Superfamily Superfamily superfamily	f.40.1 — V-type ATP synthase subunit C
Family Family family	f.40.1.1 — V-type ATP synthase subunit C

Domain ID domain_id	d1r5zb_
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.40 — V-type ATP synthase subunit C
Superfamily Superfamily superfamily	f.40.1 — V-type ATP synthase subunit C
Family Family family	f.40.1.1 — V-type ATP synthase subunit C

Domain ID domain_id	d1r5zc_
Class class	f — Membrane and cell surface proteins and peptides
Fold Fold fold	f.40 — V-type ATP synthase subunit C
Superfamily Superfamily superfamily	f.40.1 — V-type ATP synthase subunit C
Family Family family	f.40.1.1 — V-type ATP synthase subunit C

CATH v4.4 (9 domains)

Domain ID domain_id	1r5zA01
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	132 — Topoisomerase I; Chain A, domain 4
Homologous superfamily homologous superfamily	50 — ATP synthase (C/AC39) subunit, domain 3

Domain ID domain_id	1r5zA02
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

Domain ID domain_id	1r5zA03
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

Domain ID domain_id	1r5zB01
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	132 — Topoisomerase I; Chain A, domain 4
Homologous superfamily homologous superfamily	50 — ATP synthase (C/AC39) subunit, domain 3

Domain ID domain_id	1r5zB02
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

Domain ID domain_id	1r5zB03
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

Domain ID domain_id	1r5zC01
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	132 — Topoisomerase I; Chain A, domain 4
Homologous superfamily homologous superfamily	50 — ATP synthase (C/AC39) subunit, domain 3

Domain ID domain_id	1r5zC02
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

Domain ID domain_id	1r5zC03
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1690 — V-type ATP synthase subunit C fold
Homologous superfamily homologous superfamily	10 — V-type ATP synthase subunit C domain

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Unit-cell length a length_a	118.429 Å
Unit-cell length b length_b	118.429 Å
Unit-cell length c length_c	152.086 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	120.00 °
Molecules per unit cell Z z_pdb	18

Space group space_group	P 61
Space-group number int_tables_number	169
Crystal system crystal_system	—

Resolution resolution	1.950 Å
Low-resolution limit resolution_low	40.000 Å
R factor r_factor	0.1936
R_work r_work	0.1907
R_free r_free	0.2494

Description description	V-type ATP synthase subunit C
Molecular weight formula_weight	35968.6 kDa
EC 编号 ec_number	3.6.3.14
Source method src_method	man
Copy count entity_count	3

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C
Atom count atom_count	8179

Crystal Structure of Subunit C of V-ATPase

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

V-type ATP synthase subunit C

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

1r5z__assembly_1__model_1

1r5z__assembly_1__model_1 | I(q)

1r5z__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) 12 domains

SCOP 2.08 (3 domains)

CATH v4.4 (9 domains)

7. Citations (1)

Source organism organism	Thermus thermophilus
NCBI taxonomy ID ncbi_taxonomy_id	274
Host organism host_organism	Escherichia coli

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	637

Crystal Structure of Subunit C of V-ATPase

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

V-type ATP synthase subunit C

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

1r5z__assembly_1__model_1

1r5z__assembly_1__model_1 | I(q)

1r5z__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) 12 domains

SCOP 2.08 (3 domains)

CATH v4.4 (9 domains)

7. Citations (1)