SAXSdb — 2pzz

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

UPF0201 protein MJ1564

Methanocaldococcus jannaschii DSM 2661

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
2	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	Y1564_METJA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 3–140； UniProt 2–139 Author chain B； PDBConstruct 3–140； UniProt 2–139 Author chain C； PDBConstruct 3–140； UniProt 2–139 Author chain D； PDBConstruct 3–140； UniProt 2–139

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	2pzz
Deposition date deposition_date	2007-05-18
Structure title title	2.2 A resolution crystal structure of UPF0201 protein from Methanococcus jannaschii
Keywords keywords	;UPF0201, MJ1564, 10077a3, Methanococcus jannaschii, PSI2, NYSGXRC, Structural Genomics, Protein Structure Initiative, New York SGX Research Center for Structural Genomics, UNKNOWN FUNCTION ;; STRUCTURAL GENOMICS, 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.

2pzz__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2pzz__assembly_2__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2pzz__assembly_2__model_1 | P(r) · Pending

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

Rg（Guinier）	22.95 Å
Rg (electron density)	22.12 Å
Total Rg	23.36 Å
Atom count	1875
Residues	230
Excluded volume	34439 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2pzz__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2pzz__assembly_2__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 (2)

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6. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (8 domains)

Domain ID domain_id	d2pzza1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.77 — RL5-like
Superfamily Superfamily superfamily	d.77.1 — RL5-like
Family Family family	d.77.1.2 — SSO1042-like

Domain ID domain_id	d2pzza2
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	d2pzzb1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.77 — RL5-like
Superfamily Superfamily superfamily	d.77.1 — RL5-like
Family Family family	d.77.1.2 — SSO1042-like

Domain ID domain_id	d2pzzb2
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	d2pzzc1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.77 — RL5-like
Superfamily Superfamily superfamily	d.77.1 — RL5-like
Family Family family	d.77.1.2 — SSO1042-like

Domain ID domain_id	d2pzzc2
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	d2pzzd1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.77 — RL5-like
Superfamily Superfamily superfamily	d.77.1 — RL5-like
Family Family family	d.77.1.2 — SSO1042-like

Domain ID domain_id	d2pzzd2
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 (4 domains)

Domain ID domain_id	2pzzA01
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1440 — 50s Ribosomal Protein L5; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L5

Domain ID domain_id	2pzzB00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1440 — 50s Ribosomal Protein L5; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L5

Domain ID domain_id	2pzzC00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1440 — 50s Ribosomal Protein L5; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L5

Domain ID domain_id	2pzzD00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1440 — 50s Ribosomal Protein L5; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L5

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Unit-cell length a length_a	46.520 Å
Unit-cell length b length_b	50.150 Å
Unit-cell length c length_c	73.820 Å
Unit-cell angle α angle_alpha	70.34 °
Unit-cell angle β angle_beta	72.61 °
Unit-cell angle γ angle_gamma	84.30 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	2.200 Å
Low-resolution limit resolution_low	47.230 Å
R factor r_factor	0.2490
R_work r_work	0.2490
R_free r_free	0.2990

Description description	UPF0201 protein MJ1564
Molecular weight formula_weight	16896.0 kDa
Source method src_method	man
Copy count entity_count	4

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	3926

2.2 A resolution crystal structure of UPF0201 protein from Methanococcus jannaschii

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

UPF0201 protein MJ1564

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

2pzz__assembly_2__model_1

2pzz__assembly_2__model_1 | I(q)

2pzz__assembly_2__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 (8 domains)

CATH v4.4 (4 domains)

7. Citations (1)

Source organism organism	Methanocaldococcus jannaschii DSM 2661
NCBI taxonomy ID ncbi_taxonomy_id	243232
Host organism host_organism	Escherichia coli BL21(DE3)

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	83

2.2 A resolution crystal structure of UPF0201 protein from Methanococcus jannaschii

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

UPF0201 protein MJ1564

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

2pzz__assembly_2__model_1

2pzz__assembly_2__model_1 | I(q)

2pzz__assembly_2__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 (8 domains)

CATH v4.4 (4 domains)

7. Citations (1)