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3kdk

Structure of the C-terminal domain of Bacillus subtilis MutL bound to Zn2+

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

DNA mismatch repair protein mutL

Bacillus subtilis

UniProt P49850

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 ZINC ION × 4 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
3gab 3gab 3gab 3kdg 3kdk 9n2k

6 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name MUTL_BACSU
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–197； UniProt 434–627 Author chain B； PDBConstruct 4–197； UniProt 434–627

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_id3kdk
Deposition date deposition_date2009-10-23
Structure title titleStructure of the C-terminal domain of Bacillus subtilis MutL bound to Zn2+
Keywords keywordsmismatch repair, MutL, endonuclease, Zn-binding protein, DNA damage, DNA repair, 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.

3kdk__assembly_1__model_1

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

Download this curve (.dat)

3kdk__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.

3kdk__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）32.68 Å
Rg (electron density)33.86 Å
Total Rg33.55 Å
Atom count3040
Residues370
Excluded volume54217 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3kdk__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 (3)

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6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id3kdkA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1540 — formyl-coa transferase, domain 3
Homologous superfamily homologous superfamily20 — MutL, C-terminal domain, dimerisation subdomain
Domain ID domain_id3kdkA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1370 — Ribosomal Protein S8; Chain: A, domain 1
Homologous superfamily homologous superfamily100 — MutL, C-terminal domain, regulatory subdomain
Domain ID domain_id3kdkB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1540 — formyl-coa transferase, domain 3
Homologous superfamily homologous superfamily20 — MutL, C-terminal domain, dimerisation subdomain
Domain ID domain_id3kdkB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1370 — Ribosomal Protein S8; Chain: A, domain 1
Homologous superfamily homologous superfamily100 — MutL, C-terminal domain, regulatory subdomain
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7. Citations (1)