4C4N: Sonic Hedgehog-heparin complex

Crystal structure of the Sonic Hedgehog-heparin complex. Determined by X-ray diffraction at 2.36 Å resolution. Released 2 Oct 2013.

Method: X-ray diffraction
Resolution: 2.36 Å
Organism: MUS MUSCULUS
Chains: 2
Atoms: 2,717
Mol. weight: 41.36 kDa
Ligands: CA, ZN
Released: 2 Oct 2013

Explore 4C4N in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4C4N contains 16 α-helices and 18 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: 8 helices, 8 β-strands

Element	Residues	Length	Sheet
α-helix	42-44	3
β-strand	48-49	2	1
α-helix	72-76	5
β-strand	78-79	2	2
β-strand	85-87	3	1
α-helix	95-97	3
β-strand	98-99	2	2
α-helix	101-117	17
β-strand	123-127	5	1
α-helix	140-143	4
β-strand	146-151	6	1
α-helix	156-158	3
α-helix	159-168	10
β-strand	173-178	6	1
β-strand	181-185	5	1
α-helix	187-189	3

Chain B: 8 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	42-44	3
β-strand	48-49	2	3
β-strand	57	1	4
β-strand	59-60	2	4
α-helix	62-64	3
α-helix	72-76	5
β-strand	78-79	2	5
β-strand	85-87	3	3
α-helix	95-97	3
β-strand	98-99	2	5
α-helix	101-117	17
β-strand	123-127	5	3
α-helix	140-143	4
β-strand	146-151	6	3
α-helix	156-158	3
α-helix	159-168	10
β-strand	173-178	6	3
β-strand	181-185	5	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Sonic hedgehog protein	A, B	protein	164	MUS MUSCULUS	Q62226 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>4C4N_1 SONIC HEDGEHOG PROTEIN (chains A, B)
MALTPLAYKQFIPNVAEKTLGASGRYEGKITRNSERFKELTPNYNPDIIFKDEENTGADR
LMTQRCKDKLNALAISVMNQWPGVKLRVTEGWDEDGHHSEESLHYEGRAVDITTSDRDRS
KYGMLARLAVEAGFDWVYYESKAHIHCSVKAENSVAAKHHHHHH

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	4
ZN	Zinc ion	Zn	2

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

Primary citation

Structural Insights Into Proteoglycan-Shaped Hedgehog Signaling. Whalen, D.M., Malinauskas, T., Gilbert, R.J.C. et al. Proc Natl Acad Sci U S A (2013) 110:16420. DOI 10.1073/PNAS.1310097110 · PubMed

Other PDB entries of the same protein (UniProt Q62226 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1VHH 1.7 Å, A potential catalytic site within the amino-terminal signalling domain of sonic hedgehog
3D1M 1.7 Å, Crystal Structure of Sonic Hedgehog Bound to the third FNIII domain of CDO
4C4M 1.74 Å, Crystal structure of the Sonic Hedgehog-chondroitin-4-sulphate complex
3N1R 2.13 Å, Crystal Structure of ShhN
7RPK 2.7 Å, Cryo-EM structure of murine Dispatched in complex with Sonic hedgehog
2WG4 3.15 Å, Crystal structure of the complex between human hedgehog-interacting protein HIP and…
2WFX 3.2 Å, Crystal structure of the complex between human hedgehog-interacting protein HIP and…

Browse structure collections

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