1mto

Crystal structure of a Phosphofructokinase mutant from Bacillus stearothermophilus bound with fructose-6-phosphate

Method: X-RAY DIFFRACTION

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

6-phosphofructokinase

Geobacillus stearothermophilus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 4	6-O-phosphono-beta-D-fructofuranose × 4	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 4	6-O-phosphono-beta-D-fructofuranose × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	K6PF_BACST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–319； UniProt 1–319 Author chain B； PDBConstruct 1–319； UniProt 1–319 Author chain C； PDBConstruct 1–319； UniProt 1–319 Author chain D； PDBConstruct 1–319； UniProt 1–319 Author chain E； PDBConstruct 1–319； UniProt 1–319 Author chain F； PDBConstruct 1–319； UniProt 1–319 Author chain G； PDBConstruct 1–319； UniProt 1–319 Author chain H； PDBConstruct 1–319； UniProt 1–319

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	1mto
Deposition date deposition_date	2002-09-21
Structure title title	Crystal structure of a Phosphofructokinase mutant from Bacillus stearothermophilus bound with fructose-6-phosphate
Keywords keywords	phosphofructokinase, fructose-6-phosphate, tryptophan-shift, TRANSFERASE; TRANSFERASE
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.

1mto__assembly_2__model_1

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

Download this curve (.dat)

1mto__assembly_2__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1mto__assembly_2__model_1 | P(r) · Pending

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

Rg（Guinier）	31.29 Å
Rg (electron density)	30.39 Å
Total Rg	31.15 Å
Atom count	9664
Residues	1276
Excluded volume	171180 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1mto__assembly_1__model_1`	tetrameric （4）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1mto__assembly_2__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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6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (8 domains)

Domain ID domain_id	d1mtoa_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtob_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtoc_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtod_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtoe_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtof_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtog_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

Domain ID domain_id	d1mtoh_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.89 — Phosphofructokinase
Superfamily Superfamily superfamily	c.89.1 — Phosphofructokinase
Family Family family	c.89.1.1 — Phosphofructokinase

CATH v4.4 (16 domains)

Domain ID domain_id	1mtoA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoA02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoB01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoB02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoC01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoC02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoD01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoD02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoE01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoE02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoF01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoF02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoG01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoG02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

Domain ID domain_id	1mtoH01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	450 —

Domain ID domain_id	1mtoH02
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	460 — Phosphofructokinase domain

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Unit-cell length a length_a	110.682 Å
Unit-cell length b length_b	106.872 Å
Unit-cell length c length_c	119.588 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	113.98 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	16

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	3.200 Å
Low-resolution limit resolution_low	29.840 Å
R factor r_factor	0.1890
R_work r_work	0.1800
R_free r_free	0.2800

Description description	6-phosphofructokinase
Molecular weight formula_weight	34167.9 kDa
EC 编号 ec_number	2.7.1.11
Mutation mutation	W179Y,Y164W
Source method src_method	man
Copy count entity_count	8

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H
Atom count atom_count	19328

Crystal structure of a Phosphofructokinase mutant from Bacillus stearothermophilus bound with fructose-6-phosphate

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

6-phosphofructokinase

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

1mto__assembly_2__model_1

1mto__assembly_2__model_1 | I(q)

1mto__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 non-polymer

6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (8 domains)

CATH v4.4 (16 domains)

7. Citations (1)

Source organism organism	Geobacillus stearothermophilus
NCBI taxonomy ID ncbi_taxonomy_id	1422
Host organism host_organism	Escherichia coli

Description description	6-O-phosphono-beta-D-fructofuranose
Molecular weight formula_weight	260.1 kDa
Source method src_method	man
Copy count entity_count	8

Crystal structure of a Phosphofructokinase mutant from Bacillus stearothermophilus bound with fructose-6-phosphate

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

6-phosphofructokinase

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

1mto__assembly_2__model_1

1mto__assembly_2__model_1 | I(q)

1mto__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 non-polymer

6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (8 domains)

CATH v4.4 (16 domains)

7. Citations (1)