SAXSdb — 9s88

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

Sulfatase

Akkermansia muciniphila ATCC BAA-835

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Other combination	Monomer	Protein 1 其他Polymer 1	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose × 1 IODIDE ION × 1 BROMIDE ION × 1 CALCIUM ION × 1 water × 1	Consistent with protein count
2	Other combination	Monomer	Protein 1 其他Polymer 1	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose × 1 CALCIUM ION × 1 water × 1	Consistent with protein count
3	Other combination	Monomer	Protein 1 其他Polymer 1	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose × 1 BROMIDE ION × 2 CALCIUM ION × 1 water × 1	Consistent with protein count
4	Other combination	Monomer	Protein 1 其他Polymer 1	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose × 1 BROMIDE ION × 1 CALCIUM ION × 1 water × 1	Consistent with protein count
5	Other combination	Monomer	Protein 1 其他Polymer 1	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose × 1 IODIDE ION × 1 BROMIDE ION × 2 CALCIUM ION × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	B2ULS2_AKKM8
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–496； UniProt 25–520 Author chain B； PDBConstruct 1–496； UniProt 25–520 Author chain C； PDBConstruct 1–496； UniProt 25–520 Author chain D； PDBConstruct 1–496； UniProt 25–520 Author chain E； PDBConstruct 1–496； UniProt 25–520

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	9s88
Deposition date deposition_date	2025-08-05
Last revision last_revision	2026-06-03
Structure title title	Amuc0121_S1_15 in complex with O6 sulfated Lewis A antigen (6'S-LeA)
Keywords keywords	Carbohydrate sulfatase, mucin, Akkermansia muciniphila, Sulfation, HYDROLASE; 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.

9s88__assembly_1__model_1

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

Download this curve (.dat)

9s88__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9s88__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	22.68 Å
Rg (electron density)	21.59 Å
Total Rg	22.55 Å
Atom count	3808
Residues	488
Excluded volume	67771 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9s88__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`9s88__assembly_2__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`9s88__assembly_3__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`9s88__assembly_4__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
5	1	`9s88__assembly_5__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 (6)

Entity 1 Entity 1 polymer

Description description	Sulfatase
Molecular weight formula_weight	54466.9 kDa
Source method src_method	man
Copy count entity_count	5

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E
Atom count atom_count	19672

TVKPPKAIVMIYADDLGYGDVGCYGAKGIPTPAIDKLAEQGCRFTDAYSTTSVSTPSRYALFTGEYPWRKEGTGILPGDAALIIDTKKPTLPKMLQSHGYKTYMIGKWHLGLGEKGKKIDWNKHISPSPNEIGFDESFIFAATGDRVPCVILENGNVRNLDPNDPIEVSYKHNFPGLPNGKDNKDQLKLMWSHGHNQAIINGIGRIGFMKGGKSALWKDEENADVITDKAIEYIQKSAKAKEPFFLMFATHDIHVPRCPEKRFVGKSRHGVRGDVTVELDDCVRRITEALQQAGLEKDALVIFSSDNGPVLDDGYRDFAVRDNATHSPAGPFRAGKYSILEGGSRIPFIVKWPGVIKPGTTSKALLNQMDLGASLEQLLAPGKANSFRDSENVMPALLGKSAKGRDYHVINSTGKALAIRHGKWKFIPAGVAIRDGINGASAKMSKSPEGGSLFDLEKDPKELDNVASQHPDICEQMKAKLEEIRQRSETKADQED

Source Source

Source organism organism	Akkermansia muciniphila ATCC BAA-835
NCBI taxonomy ID ncbi_taxonomy_id	349741
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 branched

Description description	6-O-sulfo-beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-alpha-D-glucopyranose
Molecular weight formula_weight	609.6 kDa
Source method src_method	syn
Copy count entity_count	5

Entity 3 Entity 3 non-polymer

Description description	IODIDE ION
Molecular weight formula_weight	126.9 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 4 Entity 4 non-polymer

Description description	BROMIDE ION
Molecular weight formula_weight	79.9 kDa
Source method src_method	syn
Copy count entity_count	6

Entity 5 Entity 5 non-polymer

Description description	CALCIUM ION
Molecular weight formula_weight	40.1 kDa
Source method src_method	syn
Copy count entity_count	5

Entity 6 Entity 6 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	363

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Unit-cell length a length_a	135.040 Å
Unit-cell length b length_b	64.150 Å
Unit-cell length c length_c	151.360 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	104.88 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	10

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

Resolution resolution	1.920 Å
Low-resolution limit resolution_low	57.856 Å
R factor r_factor	—
R_work r_work	0.2076
R_free r_free	0.2360

Amuc0121_S1_15 in complex with O6 sulfated Lewis A antigen (6'S-LeA)

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

Sulfatase

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

9s88__assembly_1__model_1

9s88__assembly_1__model_1 | I(q)

9s88__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

7. Citations (1)

Amuc0121_S1_15 in complex with O6 sulfated Lewis A antigen (6'S-LeA)

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

Sulfatase

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

9s88__assembly_1__model_1

9s88__assembly_1__model_1 | I(q)

9s88__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

7. Citations (1)