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5y4r

Structure of a methyltransferase complex

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

Chemotaxis protein methyltransferase 1

Pseudomonas aeruginosa str. PAO1

UniProt O87131

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Cyclic diguanosine monophosphate-binding protein PA4608 × 1 （Q9HVI1） SULFATE ION × 5 ;9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) ; × 2 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Cyclic diguanosine monophosphate-binding protein PA4608 × 1 （Q9HVI1） SULFATE ION × 7 ;9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) ; × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
5y4s 5y4s 5y4s 5y4s 5y4s 5y4s 5y4s 5y4s 5y4s 5y4s

10 assemblies

Homodimer

None

Homotetramer
5xlx

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
5xly 5y4r 5y4r

3 assemblies

View Construct and Data Evidence
UniProt name CHER1_PSEAE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 22–294； UniProt 2–274 Author chain B； PDBConstruct 22–294； UniProt 2–274

Cyclic diguanosine monophosphate-binding protein PA4608

Pseudomonas aeruginosa str. PAO1

UniProt Q9HVI1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Chemotaxis protein methyltransferase 1 × 1 （O87131） SULFATE ION × 5 ;9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) ; × 2 water × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Chemotaxis protein methyltransferase 1 × 1 （O87131） SULFATE ION × 7 ;9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) ; × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1ywu 2l74

2 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5xly 5y4r 5y4r

3 assemblies

View Construct and Data Evidence
UniProt name CDGBP_PSEAE
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C； PDBConstruct 22–145； UniProt 2–125 Author chain D； PDBConstruct 22–145； UniProt 2–125

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_id5y4r
Deposition date deposition_date2017-08-04
Structure title titleStructure of a methyltransferase complex
Keywords keywordsComplex, TRANSFERASE-PROTEIN BINDING complex; TRANSFERASE/PROTEIN BINDING
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.

5y4r__assembly_2__model_1

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

Download this curve (.dat)

5y4r__assembly_2__model_1 | I(q)

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

5y4r__assembly_2__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）24.15 Å
Rg (electron density)22.91 Å
Total Rg23.71 Å
Atom count3235
Residues390
Excluded volume57017 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5y4r__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5y4r__assembly_2__model_1 dimeric （2） 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) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd5y4rc_
Class classb — All beta proteins
Fold Fold foldb.45 — Split barrel-like
Superfamily Superfamily superfamilyb.45.2 — PilZ domain-like
Family Family familyb.45.2.1 — PilZ domain
Domain ID domain_idd5y4rd_
Class classb — All beta proteins
Fold Fold foldb.45 — Split barrel-like
Superfamily Superfamily superfamilyb.45.2 — PilZ domain-like
Family Family familyb.45.2.1 — PilZ domain

CATH v4.4 (2 domains)

Domain ID domain_id5y4rC00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology10 — Thrombin, subunit H
Homologous superfamily homologous superfamily220 — predicted glycosyltransferase like domains
Domain ID domain_id5y4rD00
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology10 — Thrombin, subunit H
Homologous superfamily homologous superfamily220 — predicted glycosyltransferase like domains
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7. Citations (1)