9I63: Synthetic Human Saposin D glycoprotein

Synthetic Human Saposin D glycoprotein. Determined by X-ray diffraction at 1.65 Å resolution. Released 9 Apr 2025.

Method: X-ray diffraction
Resolution: 1.65 Å
Organism: Homo sapiens
Chains: 2
Atoms: 1,501
Mol. weight: 18.33 kDa
Released: 9 Apr 2025

Explore 9I63 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9I63 contains 12 α-helices and 0 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.

Chains A and B: 6 helices, 0 β-strands

Element	Residues	Length
α-helix	409-422	14
α-helix	429-439	11
α-helix	440-442	3
α-helix	445-447	3
α-helix	448-466	19
α-helix	472-478	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Prosaposin	A, B	protein	82	Homo sapiens	P07602 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>9I63_1 Prosaposin (chains A, B)
DGGFCEVCKKLVGYLDRNLEKNSTKQEILAALEKGCSFLPDPYQKQCDQFVAEYEPVLIE
ILVEVLDPSFVCLKIGACPSAH

Primary citation

Synthetic Glycoforms Reveal Carbohydrate-Dependent Bioactivity of Human Saposin D. Graf, C.G.F., Schulz, C., Schmalzlein, M. et al. Angew Chem Int Ed Engl (2017) 56:5252-5257. DOI 10.1002/anie.201701362 · PubMed

Other PDB entries of the same protein (UniProt P07602 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3BQP 1.3 Å, Crystal Structure of Human Saposin D (orthorhombic)
4UEX 1.8 Å, Structure of human Saposin A at lysosomal pH
4DDJ 1.9 Å, Crystal structure of saposin A in complex with lauryldimethylamine-N-oxide (LDAO)
2DOB 2.0 Å, Crystal Structure of Human Saposin A
3BQQ 2.0 Å, Crystal Structure of Human Saposin D (triclinic)
2RB3 2.1 Å, Crystal Structure of Human Saposin D
4V2O 2.13 Å, Structure of saposin B in complex with chloroquine
1N69 2.2 Å, Crystal structure of human saposin B
6SLR 2.38 Å, Structure of saposin B in complex with atovaquone
2GTG 2.4 Å, Crystal Structure of Human Saposin C
2QYP 2.45 Å, Orthorhombic Crystal Structure of Human Saposin C Dimer in Open Conformation
2R0R 2.5 Å, Crystal Structure of Human Saposin D variant SapD K9E

Browse structure collections

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