1gd8

THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMAL PROTEIN.

Method: X-RAY DIFFRACTION

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

50S RIBOSOMAL PROTEIN L17

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
4	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
5	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
6	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
7	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
8	Protein monomer	Monomer	Protein 1	water × 1	Consistent with protein count
9	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	RL17_THET8
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–118； UniProt 1–118 Author chain B； PDBConstruct 1–118； UniProt 1–118 Author chain C； PDBConstruct 1–118； UniProt 1–118 Author chain D； PDBConstruct 1–118； UniProt 1–118 Author chain E； PDBConstruct 1–118； UniProt 1–118 Author chain F； PDBConstruct 1–118； UniProt 1–118 Author chain G； PDBConstruct 1–118； UniProt 1–118 Author chain H； PDBConstruct 1–118； UniProt 1–118 Author chain I； PDBConstruct 1–118； UniProt 1–118

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	1gd8
Deposition date deposition_date	2000-09-22
Structure title title	THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMAL PROTEIN.
Keywords keywords	;TWO DOMAINS, RIBOSOMAL PROTEIN S8-LIKE DOMAIN, TRP REPRESSOR-LIKE DOMAIN, HELIX-TURN-HELIX MOTIF, TWO TYPES OF DIMERS, FOUR DIMERS OF EACH TYPE., RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, RIBOSOME ;; RIBOSOME
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.

1gd8__assembly_4__model_1

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

Download this curve (.dat)

1gd8__assembly_4__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1gd8__assembly_4__model_1 | P(r) · Pending

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

Rg（Guinier）	15.65 Å
Rg (electron density)	14.34 Å
Total Rg	15.50 Å
Atom count	855
Residues	105
Excluded volume	15258 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1gd8__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1gd8__assembly_2__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`1gd8__assembly_3__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`1gd8__assembly_4__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
5	1	`1gd8__assembly_5__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
6	1	`1gd8__assembly_6__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
7	1	`1gd8__assembly_7__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
8	1	`1gd8__assembly_8__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
9	1	`1gd8__assembly_9__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) 18 domains

SCOP 2.08 (9 domains)

Domain ID domain_id	d1gd8a_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8b_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8c_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8d_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8e_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8f_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8g_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8h_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

Domain ID domain_id	d1gd8i_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.188 — Prokaryotic ribosomal protein L17
Superfamily Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
Family Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

CATH v4.4 (9 domains)

Domain ID domain_id	1gd8A00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8B00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8C00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8D00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8E00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8F00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8G00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8H00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

Domain ID domain_id	1gd8I00
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1030 — 50s Ribosomal Protein L17; Chain: A,
Homologous superfamily homologous superfamily	10 — Ribosomal protein L17

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Unit-cell length a length_a	109.239 Å
Unit-cell length b length_b	109.239 Å
Unit-cell length c length_c	128.841 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	36

Space group space_group	P 41
Space-group number int_tables_number	76
Crystal system crystal_system	—

Resolution resolution	2.300 Å
Low-resolution limit resolution_low	50.000 Å
R factor r_factor	0.2130
R_work r_work	0.2100
R_free r_free	0.2540

Description description	50S RIBOSOMAL PROTEIN L17
Molecular weight formula_weight	13750.1 kDa
Source method src_method	man
Copy count entity_count	9

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H,I
Atom count atom_count	7852

THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMAL PROTEIN.

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

50S RIBOSOMAL PROTEIN L17

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

1gd8__assembly_4__model_1

1gd8__assembly_4__model_1 | I(q)

1gd8__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 (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 18 domains

SCOP 2.08 (9 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	157

THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMAL PROTEIN.

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

50S RIBOSOMAL PROTEIN L17

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

1gd8__assembly_4__model_1

1gd8__assembly_4__model_1 | I(q)

1gd8__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 (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 18 domains

SCOP 2.08 (9 domains)

CATH v4.4 (9 domains)

7. Citations (1)