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2wzs

Structure of the Family GH92 Inverting Mannosidase BT3990 from Bacteroides thetaiotaomicron VPI-5482 in complex with Mannoimidazole

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

PUTATIVE ALPHA-1,2-MANNOSIDASE

BACTEROIDES THETAIOTAOMICRON

UniProt Q8A0N1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 3 water × 1 Consistent with protein count
2 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 4 water × 1 Consistent with protein count
3 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 4 water × 1 Consistent with protein count
4 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 4 water × 1 Consistent with protein count
5 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 3 water × 1 Consistent with protein count
6 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 GLYCEROL × 1 water × 1 Consistent with protein count
7 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 water × 1 Consistent with protein count
8 Protein monomer Monomer Protein 1 CALCIUM ION × 1 (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2wvx 2wvx 2wvx 2wvx 2wvz 2wvz 2wvz 2wvz 2ww0 2ww0 2ww0 2ww0

24 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2ww1 2ww1 2ww1 2ww1 2ww3 2ww3 2ww3 2ww3 2ww3 2ww3

10 assemblies

View Construct and Data Evidence
UniProt name Q8A0N1_BACTN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–736； UniProt 20–755 Author chain B； PDBConstruct 1–736； UniProt 20–755 Author chain C； PDBConstruct 1–736； UniProt 20–755 Author chain D； PDBConstruct 1–736； UniProt 20–755 Author chain E； PDBConstruct 1–736； UniProt 20–755 Author chain F； PDBConstruct 1–736； UniProt 20–755 Author chain G； PDBConstruct 1–736； UniProt 20–755 Author chain H； PDBConstruct 1–736； UniProt 20–755

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_id2wzs
Deposition date deposition_date2009-12-02
Structure title titleStructure of the Family GH92 Inverting Mannosidase BT3990 from Bacteroides thetaiotaomicron VPI-5482 in complex with Mannoimidazole
Keywords keywordsGLYCOSIDE HYDROLASE FAMILY 92, ALPHA-1\, 2 LINKAGE, BT3990, HYDROLASE; HYDROLASE
Experimental Method methodX-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.

2wzs__assembly_1__model_1

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

Download this curve (.dat)

2wzs__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2wzs__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）27.26 Å
Rg (electron density)26.45 Å
Total Rg27.34 Å
Atom count5994
Residues736
Excluded volume105960 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2wzs__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 2wzs__assembly_2__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 2wzs__assembly_3__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 2wzs__assembly_4__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 2wzs__assembly_5__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 2wzs__assembly_6__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
7 1 2wzs__assembly_7__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
8 1 2wzs__assembly_8__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 (5)

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6. Fold Classification (SCOP + CATH) 32 domains

CATH v4.4 (32 domains)

Domain ID domain_id2wzsA01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsA03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsA04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsB01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsB03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsB04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsC01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsC03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsC04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsD01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsD02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsD03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsD04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsE01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsE02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsE03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsE04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsF01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsF02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsF03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsF04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsG01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsG02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsG03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsG04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
Domain ID domain_id2wzsH01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology98 — Beta-galactosidase; Chain A, domain 5
Homologous superfamily homologous superfamily10 —
Domain ID domain_id2wzsH02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology2080 — GH92 mannosidase fold
Homologous superfamily homologous superfamily10 — GH92 mannosidase domain
Domain ID domain_id2wzsH03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1050 — Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
Homologous superfamily homologous superfamily60 — alpha-1,2-mannosidase
Domain ID domain_id2wzsH04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1610 — Glycosyl hydrolase family fold
Homologous superfamily homologous superfamily10 — alpha-1,2-mannosidases domains
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7. Citations (1)