SAXSdb — 1qlm

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

METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE

METHANOPYRUS KANDLERI

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 3	PHOSPHATE ION × 9 water × 3	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	MCH_METKA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–316； UniProt 1–316

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	1qlm
Deposition date deposition_date	1999-09-01
Structure title title	The crystal structure of methenyltetrahydromethanopterin cyclohydrolase from the hyperthermophilic archaeon Methanopyrus kandleri
Keywords keywords	METHANOGENESIS, BIOLOGICAL METHANOGENESIS, HYDROLASE, TETRAHYDROMETHANOPTERIN; 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.

1qlm__assembly_1__model_1

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

Download this curve (.dat)

1qlm__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1qlm__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	29.12 Å
Rg (electron density)	27.75 Å
Total Rg	28.44 Å
Atom count	7221
Residues	948
Excluded volume	127700 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1qlm__assembly_1__model_1`	trimeric （3）	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 (3)

Entity 1 Entity 1 polymer

Description description	METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE
Molecular weight formula_weight	34093.9 kDa
EC 编号 ec_number	3.5.4.27
Mutation mutation	YES
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	2642

MVSVNENALPLVERMIERAELLNVEVQELENGTTVIDCGVEAAGGFEAGLLFSEVCMGGLATVELTEFEHDGLCLPAVQVTTDHPAVSTLAAQKAGWQVQVGDYFAMGSGPARALALKPKETYEEIDYEDDADVAILCLESSELPDEDVAEHVADECGVDPENLYLLVAPTASIVGSVQVSARVVETGLYKLLEVLEYDVTRVKYATGTAPIAPVADDDGEAMGRTNDCILYGGTVYLYVEGDDELPEVVEELPSEASEDYGKPFMKIFEEADYDFYKIDPGVFAPARVVVNDLSTGKTYTAGEINVDVLKESFSL

Source Source

Source organism organism	METHANOPYRUS KANDLERI
NCBI taxonomy ID ncbi_taxonomy_id	2320
Host organism host_organism	ESCHERICHIA COLI

Entity 2 Entity 2 non-polymer

Description description	PHOSPHATE ION
Molecular weight formula_weight	95.0 kDa
Source method src_method	syn
Copy count entity_count	3

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	214

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6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1qlma_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.147 — Methenyltetrahydromethanopterin cyclohydrolase
Superfamily Superfamily superfamily	d.147.1 — Methenyltetrahydromethanopterin cyclohydrolase
Family Family family	d.147.1.1 — Methenyltetrahydromethanopterin cyclohydrolase

CATH v4.4 (2 domains)

Domain ID domain_id	1qlmA01
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	340 — Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 1
Homologous superfamily homologous superfamily	11 — Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 1

Domain ID domain_id	1qlmA02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1030 — Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2
Homologous superfamily homologous superfamily	10 — Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2

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Unit-cell length a length_a	125.900 Å
Unit-cell length b length_b	125.900 Å
Unit-cell length c length_c	172.400 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 63 2 2
Space-group number int_tables_number	182
Crystal system crystal_system	—

Resolution resolution	2.000 Å
Low-resolution limit resolution_low	30.000 Å
R factor r_factor	0.1980
R_work r_work	0.1980
R_free r_free	0.2190

The crystal structure of methenyltetrahydromethanopterin cyclohydrolase from the hyperthermophilic archaeon Methanopyrus kandleri

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

METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE

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

1qlm__assembly_1__model_1

1qlm__assembly_1__model_1 | I(q)

1qlm__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

CATH v4.4 (2 domains)

7. Citations (1)

The crystal structure of methenyltetrahydromethanopterin cyclohydrolase from the hyperthermophilic archaeon Methanopyrus kandleri

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

METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE

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

1qlm__assembly_1__model_1

1qlm__assembly_1__model_1 | I(q)

1qlm__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

CATH v4.4 (2 domains)

7. Citations (1)