Structure of PDB 3fd6 Chain B

Receptor sequence

>3fd6B (length=353) Species: 9606 (Homo sapiens)

SFNPESYLDKSFRLTRFTELKGTGCKVPQDVLQKLLESLVMPRLGIGMDT
CVIPLRHGGLSLVQTTDYIYPIVDDPYMMGRIACANVLSDLYAMGVTECD
NMLMLLGVSNKMTDRERDKVMPLIIQGFKDAAEEAGTSVTGGQTVLNPWI
VLGGVATTVCQPNEFIMPDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEK
WNKIKLVVTQEDVELAYQEAMMNMARLNRTAAGLMHTFNAHAATDITGFG
ILGHAQNLAKQQRNEVSFVIHNLPVLAKMAAVSKACGNMFGLMHGTCPET
SGGLLICLPREQAARFCAEIKSPGHQAWIIGIVEKGNRTARIIDKPRIIE
VAP

3D structure

• PDB: 3fd6 Crystal structures of catalytic intermediates of human selenophosphate synthetase 1.
• Chain: B
• Resolution: 1.95 Å

Enzymatic activity

• Enzyme Commision number: 2.7.9.3: selenide, water dikinase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ADP	B	M124 G161 G162 Q163 T164	M104 G141 G142 Q143 T144
BS02	ADP	B	K32 L42 G67 M68 D110 F269	K26 L36 G47 M48 D90 F249
BS03	PO4	B	K32 D87 T267 G268	K26 D67 T247 G248
BS04	MG	B	D69 D110 D265	D49 D90 D245

Gene Ontology

Molecular Function

• GO:0004756 selenide, water dikinase activity
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0005525 GTP binding
• GO:0016301 kinase activity
• GO:0042802 identical protein binding
• GO:0046872 metal ion binding

Biological Process

• GO:0016260 selenocysteine biosynthetic process
• GO:0016310 phosphorylation
• GO:0036211 protein modification process

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005886 plasma membrane
• GO:0031965 nuclear membrane

External links

• PDB: RCSB:3fd6, PDBe:3fd6, PDBj:3fd6
• PDBsum: 3fd6
• PubMed: 19477186
• UniProt: P49903|SPS1_HUMAN Selenide, water dikinase 1 (Gene Name=SEPHS1)