2af7

Crystal structure of the gamma-carboxymuconolactone decarboxylase from Methanobacterium thermoautotrophicum. Northeast Structural Genomics Consortium target TT747.

Method: X-RAY DIFFRACTION

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

gamma-carboxymuconolactone decarboxylase

Methanothermobacter thermautotrophicus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 6	water × 6	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 6	water × 6	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	O26336_METTH
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–125； UniProt 1–125 Author chain B； PDBConstruct 1–125； UniProt 1–125 Author chain C； PDBConstruct 1–125； UniProt 1–125 Author chain D； PDBConstruct 1–125； UniProt 1–125 Author chain E； PDBConstruct 1–125； UniProt 1–125 Author chain F； PDBConstruct 1–125； UniProt 1–125 Author chain G； PDBConstruct 1–125； UniProt 1–125 Author chain H； PDBConstruct 1–125； UniProt 1–125 Author chain I； PDBConstruct 1–125； UniProt 1–125

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	2af7
Deposition date deposition_date	2005-07-25
Structure title title	Crystal structure of the gamma-carboxymuconolactone decarboxylase from Methanobacterium thermoautotrophicum. Northeast Structural Genomics Consortium target TT747.
Keywords keywords	;Gamma-carboxymuconolactone decarboxylase, O26336_METTH, NESG, TT747, Structural Genomics, PSI, Protein Structure Initiative, Northeast Structural Genomics Consortium, 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.

2af7__assembly_2__model_1

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

Download this curve (.dat)

2af7__assembly_2__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2af7__assembly_2__model_1 | P(r) · Pending

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

Rg（Guinier）	26.18 Å
Rg (electron density)	24.81 Å
Total Rg	25.66 Å
Atom count	5472
Residues	686
Excluded volume	98350 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2af7__assembly_1__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2af7__assembly_2__model_1`	hexameric （6）	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	d2af7a1
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7b_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7c_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7d_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7e_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7f_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7g_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7h_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

Domain ID domain_id	d2af7i_
Class class	a — All alpha proteins
Fold Fold fold	a.152 — AhpD-like
Superfamily Superfamily superfamily	a.152.1 — AhpD-like
Family Family family	a.152.1.2 — CMD-like

CATH v4.4 (9 domains)

Domain ID domain_id	2af7A00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7B00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7C00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7D00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7E00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7F00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7G00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7H00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

Domain ID domain_id	2af7I00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	1290 — AhpD-like
Homologous superfamily homologous superfamily	10 — AhpD-like

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Unit-cell length a length_a	183.306 Å
Unit-cell length b length_b	119.109 Å
Unit-cell length c length_c	73.620 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	102.80 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	36

Space group space_group	C 1 2 1
Space-group number int_tables_number	5
Crystal system crystal_system	—

Resolution resolution	2.810 Å
Low-resolution limit resolution_low	29.970 Å
R factor r_factor	0.2450
R_work r_work	0.2450
R_free r_free	0.2920

Description description	gamma-carboxymuconolactone decarboxylase
Molecular weight formula_weight	14219.5 kDa
EC 编号 ec_number	4.1.1.44
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	8293

Crystal structure of the gamma-carboxymuconolactone decarboxylase from Methanobacterium thermoautotrophicum. Northeast Structural Genomics Consortium target TT747.

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

gamma-carboxymuconolactone decarboxylase

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

2af7__assembly_2__model_1

2af7__assembly_2__model_1 | I(q)

2af7__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) 18 domains

SCOP 2.08 (9 domains)

CATH v4.4 (9 domains)

7. Citations (1)

Source organism organism	Methanothermobacter thermautotrophicus
NCBI taxonomy ID ncbi_taxonomy_id	145262
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	94

Crystal structure of the gamma-carboxymuconolactone decarboxylase from Methanobacterium thermoautotrophicum. Northeast Structural Genomics Consortium target TT747.

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

gamma-carboxymuconolactone decarboxylase

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

2af7__assembly_2__model_1

2af7__assembly_2__model_1 | I(q)

2af7__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) 18 domains

SCOP 2.08 (9 domains)

CATH v4.4 (9 domains)

7. Citations (1)