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7m10

PHF2 PHD Domain Complexed with Peptide From N-terminus of VRK1

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

Lysine-specific demethylase PHF2

Homo sapiens

UniProt O75151

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Serine/threonine-protein kinase VRK1 N-terminus peptide × 1 （Q99986） ZINC ION × 2 FORMIC ACID × 6 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3ptr 3pu3 3pu3 3pu8 3pu8 3pua 3pus 3pus

8 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3kqi 3kqi 7m10 8f8y 8f8y 8f8z 8f8z

7 assemblies

View Construct and Data Evidence
UniProt name PHF2_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 5–74； UniProt 1–70

Serine/threonine-protein kinase VRK1 N-terminus peptide

OrganismNot specified

UniProt Q99986

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Lysine-specific demethylase PHF2 × 1 （O75151） ZINC ION × 2 FORMIC ACID × 6 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2kty 2kul 2lav 2rsv 3op5 3op5 3op5 3op5 5ukf 5ukf 5ukf 5ukf

80 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
7m10 7tan 8f8y 8f8y

4 assemblies

View Construct and Data Evidence
UniProt name VRK1_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–12； UniProt 2–13

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_id7m10
Deposition date deposition_date2021-03-11
Structure title titlePHF2 PHD Domain Complexed with Peptide From N-terminus of VRK1
Keywords keywordsPHD FINGER, METAL-BINDING, ZINC-FINGER, HISTONE-BINDING, NON-HISTONE BINDING, PROTEIN BINDING; 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.

7m10__assembly_1__model_1

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

Download this curve (.dat)

7m10__assembly_1__model_1 | I(q)

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

7m10__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）14.68 Å
Rg (electron density)14.27 Å
Total Rg15.16 Å
Atom count635
Residues75
Excluded volume11278 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 7m10__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 (5)

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7. Citations (1)