4IUP: Sawadee homeodomain homolog 1

crystal structure of Se-substituted arabidopsis thaliana SHH1 SAWADEE domain L200M/L218M mutant. Determined by X-ray diffraction at 1.9 Å resolution. Released 1 May 2013.

Method: X-ray diffraction
Resolution: 1.9 Å
Organism: Arabidopsis thaliana
Chains: 2
Atoms: 2,645
Mol. weight: 33.07 kDa
Ligands: CVM, ZN
Released: 1 May 2013

Explore 4IUP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4IUP contains 12 α-helices and 24 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: 5 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	129-132	4	1
β-strand	139-141	3	1
β-strand	142-150	9	2
β-strand	156-162	7	2
β-strand	171-174	4	2
α-helix	175-178	4
β-strand	179-181	3	1
α-helix	182-183	2
β-strand	184-185	2	3
α-helix	188-193	6
β-strand	199-206	8	3
β-strand	209-221	13	3
β-strand	233-238	6	3
β-strand	244-247	4	3
α-helix	249-251	3
β-strand	252-254	3	3
α-helix	255-256	2

Chain B: 7 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	125-127	3
β-strand	129-132	4	4
β-strand	139-141	3	4
β-strand	142-150	9	5
β-strand	156-162	7	5
α-helix	167-169	3
β-strand	171-173	3	5
α-helix	175-178	4
β-strand	179-181	3	4
α-helix	182-183	2
β-strand	184-185	2	6
α-helix	188-193	6
β-strand	199-206	8	6
β-strand	209-221	13	6
β-strand	233-238	6	6
β-strand	244-247	4	6
α-helix	249-251	3
β-strand	252-254	3	6
α-helix	255-256	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Sawadee homeodomain homolog 1	A, B	protein	135	Arabidopsis thaliana	Q9XI47 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>4IUP_1 SAWADEE HOMEODOMAIN HOMOLOG 1 (chains A, B)
SADLAFEAKSARDYAWYDVSSFLTYRVLRTGELEVRVRFSGFDNRHDEWVNVKTSVRERS
IPVEPSECGRVNVGDLMLCFQEREDQALYCDGHVMNIKRGIHDHARCNCVFLVRYELDNT
EESLGLERICRRPEE

Ligands and cofactors

ID	Name	Formula	Copies
CVM	Cymal-4	C22 H40 O11	2
ZN	Zinc ion	Zn	2

Water and common crystallization additives (BME) are not listed.

Primary citation

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1. Law, J.A., Du, J., Hale, C.J. et al. Nature (2013) 498:385-389. DOI 10.1038/nature12178 · PubMed

Other PDB entries of the same protein (UniProt Q9XI47 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4IUR 2.5 Å, crystal structure of SHH1 SAWADEE domain in complex with H3K9me3 peptide
4IUT 2.7 Å, crystal structure of SHH1 SAWADEE domain in complex with H3K9me2 peptide
4IUU 2.7 Å, Crystal structure of SHH1 SAWADEE domain in complex with H3K9me1 peptide
4IUV 2.8 Å, crystal structure of SHH1 SAWADEE domain in complex with H3K4me1K9me1 peptide
4IUQ 2.81 Å, crystal structure of SHH1 SAWADEE domain

Browse structure collections

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