SAXSdb — 9uuw

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

Cys/Met metabolism PLP-dependent enzyme-domain-containing protein

Yarrowia lipolytica

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 4	METHIONINE × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A1D8NC95_YARLL
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–380； UniProt 1–380 Author chain B； PDBConstruct 1–380； UniProt 1–380

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	9uuw
Deposition date deposition_date	2025-05-08
Last revision last_revision	2026-05-13
Structure title title	Crystal structure of Yarrowia lipolytica methionine gamma-lyase in complex with L-methionine
Keywords keywords	PLP, Methionine, LYASE; LYASE
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.

9uuw__assembly_1__model_1

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

Download this curve (.dat)

9uuw__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9uuw__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	34.00 Å
Rg (electron density)	33.25 Å
Total Rg	33.86 Å
Atom count	11226
Residues	1424
Excluded volume	199210 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9uuw__assembly_1__model_1`	tetrameric （4）	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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Unit-cell length a length_a	166.054 Å
Unit-cell length b length_b	166.054 Å
Unit-cell length c length_c	81.314 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	12

Space group space_group	P 32 2 1
Space-group number int_tables_number	154
Crystal system crystal_system	—

Resolution resolution	3.040 Å
Low-resolution limit resolution_low	70.782 Å
R factor r_factor	0.2344
R_work r_work	0.2327
R_free r_free	0.2662

Description description	Cys/Met metabolism PLP-dependent enzyme-domain-containing protein
Molecular weight formula_weight	42203.2 kDa
Source method src_method	man
Copy count entity_count	2

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	5613

Crystal structure of Yarrowia lipolytica methionine gamma-lyase in complex with L-methionine

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

Cys/Met metabolism PLP-dependent enzyme-domain-containing protein

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

9uuw__assembly_1__model_1

9uuw__assembly_1__model_1 | I(q)

9uuw__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 non-polymer

7. Citations (1)

Source organism organism	Yarrowia lipolytica
NCBI taxonomy ID ncbi_taxonomy_id	4952
Host organism host_organism	Escherichia coli

Description description	METHIONINE
Molecular weight formula_weight	149.2 kDa
Source method src_method	syn
Copy count entity_count	2

Crystal structure of Yarrowia lipolytica methionine gamma-lyase in complex with L-methionine

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

Cys/Met metabolism PLP-dependent enzyme-domain-containing protein

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

9uuw__assembly_1__model_1

9uuw__assembly_1__model_1 | I(q)

9uuw__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 non-polymer

7. Citations (1)