← Back to search
4gom

Crystal Structure of E. coli DNA Adenine Methyltransferase in Complex with Aza-SAM

Method: X-RAY DIFFRACTION
▼

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

DNA adenine methylase

Escherichia coli

UniProt P0AEE8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 3 5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine × 3 water × 3 Consistent with protein count
2 Protein monomer Monomer Protein 1 5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine × 1 water × 1 Consistent with protein count
3 Protein monomer Monomer Protein 1 5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine × 1 water × 1 Consistent with protein count
4 Protein monomer Monomer Protein 1 5'-{[(3S)-3-amino-3-carboxypropyl]amino}-5'-deoxyadenosine × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2ore 2ore 2ore 4gbe 4gbe 4gbe 4gol 4gol 4gol 4gom 4gom 4gom

18 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers
4gbe 4gol 4gom 4gon 4goo

5 assemblies

Heteromeric or nucleic-acid complex
2g1p

1 assemblies

View Construct and Data Evidence
UniProt name DMA_ECOLI
Isoform —
PDB entities 1
Chains and sequence ranges Author chain D； PDBConstruct 1–278； UniProt 1–278 Author chain E； PDBConstruct 1–278； UniProt 1–278 Author chain F； PDBConstruct 1–278； UniProt 1–278

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id4gom
Deposition date deposition_date2012-08-20
Structure title titleCrystal Structure of E. coli DNA Adenine Methyltransferase in Complex with Aza-SAM
Keywords keywordsTransferase, methylation; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION
▼

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.

4gom__assembly_4__model_1

Assembly 4 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

4gom__assembly_4__model_1 | I(q)

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

4gom__assembly_4__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）19.80 Å
Rg (electron density)18.72 Å
Total Rg19.72 Å
Atom count1987
Residues244
Excluded volume35063 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4gom__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4gom__assembly_2__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 4gom__assembly_3__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 4gom__assembly_4__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (3)

▼

6. Fold Classification (SCOP + CATH) 9 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd4gomd_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.66 — S-adenosyl-L-methionine-dependent methyltransferases
Superfamily Superfamily superfamilyc.66.1 — S-adenosyl-L-methionine-dependent methyltransferases
Family Family familyc.66.1.28 — N6 adenine-specific DNA methylase, DAM
Domain ID domain_idd4gome_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.66 — S-adenosyl-L-methionine-dependent methyltransferases
Superfamily Superfamily superfamilyc.66.1 — S-adenosyl-L-methionine-dependent methyltransferases
Family Family familyc.66.1.28 — N6 adenine-specific DNA methylase, DAM
Domain ID domain_idd4gomf_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.66 — S-adenosyl-L-methionine-dependent methyltransferases
Superfamily Superfamily superfamilyc.66.1 — S-adenosyl-L-methionine-dependent methyltransferases
Family Family familyc.66.1.28 — N6 adenine-specific DNA methylase, DAM

CATH v4.4 (6 domains)

Domain ID domain_id4gomD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily150 — Vaccinia Virus protein VP39
Domain ID domain_id4gomD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1020 — Adenine-specific Methyltransferase; domain 2
Homologous superfamily homologous superfamily10 — Adenine-specific Methyltransferase, Domain 2
Domain ID domain_id4gomE01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily150 — Vaccinia Virus protein VP39
Domain ID domain_id4gomE02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1020 — Adenine-specific Methyltransferase; domain 2
Homologous superfamily homologous superfamily10 — Adenine-specific Methyltransferase, Domain 2
Domain ID domain_id4gomF01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily150 — Vaccinia Virus protein VP39
Domain ID domain_id4gomF02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1020 — Adenine-specific Methyltransferase; domain 2
Homologous superfamily homologous superfamily10 — Adenine-specific Methyltransferase, Domain 2
▶

7. Citations (1)