6LQF: Arabidopsis ARID5 ARID-PHD cassette

Crystal structure of Arabidopsis ARID5 ARID-PHD cassette in complex with H3K4me3 peptide and DNA. Determined by X-ray diffraction at 1.5 Å resolution. Released 3 Jun 2020.

Method
X-ray diffraction
Resolution
1.5 Å
Organisms
Arabidopsis thaliana, synthetic construct
Chains
4
Atoms
2,133
Mol. weight
32.06 kDa
Ligands
ZN
Released
3 Jun 2020

Explore 6LQF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6LQF contains 13 α-helices and 5 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 13 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix561-5633
α-helix569-58214
α-helix586-5883
α-helix593-5964
β-strand601-60221
β-strand605-60621
α-helix609-6179
α-helix622-6276
α-helix630-6345
α-helix635-6373
α-helix650-66112
α-helix663-6675
α-helix675-6773
β-strand687-69042
β-strand697-69932
α-helix700-7023
α-helix711-7155
Chain P: 0 helices, 1 β-strand
ElementResiduesLengthSheet
β-strand3-532

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
AT-rich interactive domain-containing protein 4Aprotein204Arabidopsis thalianaQ6NQ79 (AlphaFold model)
15-mer peptide from Histone H3.2Pprotein15Arabidopsis thalianaP59226 (AlphaFold model)
DNA (5'-d(*tp*tp*tp*ap*gp*ap*tp*cp*tp*ap*ap*a)-3')B, CDNA12synthetic construct
Sequence of entity 1 (A), FASTA
>6LQF_1 AT-rich interactive domain-containing protein 4 (chains A)
SQIISLNPLPLKKHDCGRAHIQVCSEEEFLRDVMQFLLIRGHTRLVPPGGLAEFPDAVLN
SKRLDLFNLYREVVSRGGFHVGNGINWKGQVFSKMRNHTLTNRMTGVGNTLKRHYETYLL
EYEYAHDDVDGECCLICRSSTAGDWVNCGSCGEWAHFGCDRRPGLGAFKDYAKTDGLEYV
CPNCSVSNYRKKSQKTSNGGLLVP
Sequence of entity 2 (P), FASTA
>6LQF_2 15-mer peptide from Histone H3.2 (chains P)
ARTKQTARKSTGGKA
Sequence of entity 3 (B, C), FASTA
>6LQF_3 DNA (5'-D(*TP*TP*TP*AP*GP*AP*TP*CP*TP*AP*AP*A)-3') (chains B, C)
TTTAGATCTAAA

Ligands and cofactors

IDNameFormulaCopies
ZNZinc ionZn3

Primary citation

Dual Recognition of H3K4me3 and DNA by the ISWI Component ARID5 Regulates the Floral Transition in Arabidopsis. Tan, L.M., Liu, R., Gu, B.W. et al. Plant Cell (2020) 32:2178-2195. DOI 10.1105/tpc.19.00944 · PubMed

Other PDB entries of the same protein (UniProt Q6NQ79 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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