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2e0k

Crystal structure of CbiL, a methyltransferase involved in anaerobic vitamin B12 biosynthesis

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

Precorrin-2 C20-methyltransferase

Chlorobaculum tepidum

UniProt Q8KFD9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
2e0k 2e0n

2 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name Q8KFD9_CHLTE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–246； UniProt 1–246 Author chain B； PDBConstruct 1–246； UniProt 1–246

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_id2e0k
Deposition date deposition_date2006-10-10
Structure title titleCrystal structure of CbiL, a methyltransferase involved in anaerobic vitamin B12 biosynthesis
Keywords keywordsprecorrin-2, cobalt-factor II, tetrapyrrole, S-adenosylmethionine, TRANSFERASE; TRANSFERASE
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.

2e0k__assembly_1__model_1

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

Download this curve (.dat)

2e0k__assembly_1__model_1 | I(q)

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

2e0k__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）23.78 Å
Rg (electron density)22.24 Å
Total Rg23.11 Å
Atom count3603
Residues485
Excluded volume64557 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2e0k__assembly_1__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 (2)

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6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id2e0kA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1010 — Cobalt-precorrin-4 Transmethylase; domain 1
Homologous superfamily homologous superfamily10 — Tetrapyrrole methylase, N-terminal domain
Domain ID domain_id2e0kA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology950 — Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2
Homologous superfamily homologous superfamily10 — Tetrapyrrole methylase, C-terminal domain
Domain ID domain_id2e0kB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1010 — Cobalt-precorrin-4 Transmethylase; domain 1
Homologous superfamily homologous superfamily10 — Tetrapyrrole methylase, N-terminal domain
Domain ID domain_id2e0kB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology950 — Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2
Homologous superfamily homologous superfamily10 — Tetrapyrrole methylase, C-terminal domain
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7. Citations (1)