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5lt6

Structure of the Epigenetic Oncogene MMSET and inhibition by N-Alkyl Sinefungin Derivatives

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

Histone-lysine N-methyltransferase SETD2

Homo sapiens

UniProt Q9BYW2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 ZINC ION × 3 THIOCYANATE ION × 1 ;[(2~{S},5~{S})-1-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]-5-azaniumyl-6-oxidanyl-6-oxidanylidene-hexan-2-yl]-pentyl-azanium ; × 1 water × 1 Consistent with protein count
2 Protein monomer Monomer Protein 1 ZINC ION × 3 THIOCYANATE ION × 1 ;[(2~{S},5~{S})-1-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]-5-azaniumyl-6-oxidanyl-6-oxidanylidene-hexan-2-yl]-pentyl-azanium ; × 1 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2a7o 2mdc 2mdi 2mdj 4fmu 4h12 5jle 5lss 5lsx 5lsy 5lsz 5lt6

20 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5jjy 5jlb 5v21 5v22 6j9j 6vdb 7ea8 7evr 7evr 7evs 7evs 8q5p

26 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name SETD2_HUMAN
Isoform Q9BYW2-2
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 17–295； UniProt 1433–1711 Author chain B； PDBConstruct 17–295； UniProt 1433–1711

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_id5lt6
Deposition date deposition_date2016-09-06
Structure title titleStructure of the Epigenetic Oncogene MMSET and inhibition by N-Alkyl Sinefungin Derivatives
Keywords keywordslysine methyltransferase SETD2 SET domain, SETD2#1, 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.

5lt6__assembly_2__model_1

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

Download this curve (.dat)

5lt6__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.

5lt6__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）19.90 Å
Rg (electron density)18.80 Å
Total Rg19.84 Å
Atom count1863
Residues227
Excluded volume32187 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5lt6__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5lt6__assembly_2__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) 2 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd5lt6a_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.54 — SNF-like
Superfamily Superfamily superfamilyf.54.1 — SNF-like
Family Family familyf.54.1.2 — Amino acid antiporter-like
Domain ID domain_idd5lt6b_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.54 — SNF-like
Superfamily Superfamily superfamilyf.54.1 — SNF-like
Family Family familyf.54.1.2 — Amino acid antiporter-like
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7. Citations (1)