Structure of PDB 2var Chain B

Receptor sequence

>2varB (length=311) Species: 2287 (Saccharolobus solfataricus)

VDVIALGEPLIQFNSFNPGPLRFVNYFEKHVAGSELNFCIAVVRNHLSCS
LIARVGNDEFGKNIIEYSRAQGIDTSHIKVDNESFTGIYFIQRGYPIPMK
SELVYYRKGSAGSRLSPEDINENYVRNSRLVHSTGITLAISDNAKEAVIK
AFELAKSRSLDTNIRPKLWSSLEKAKETILSILKKYDIEVLITDPDDTKI
LLDVTDPDEAYRKYKELGVKVLLYKLGSKGAIAYKDNVKAFKDAYKVPVE
DPTGAGDAMAGTFVSLYLQGKDIEYSLAHGIAASTLVITVRGDNELTPTL
EDAERFLNEFK

3D structure

• PDB: 2var The Structure of Sulfolobus Solfataricus 2-Keto-3-Deoxygluconate Kinase.
• Chain: B
• Resolution: 2.1 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): G255 A256 G257 D258
• Catalytic site (residue number reindexed from 1): G254 A255 G256 D257
• Enzyme Commision number: 2.7.1.178: 2-dehydro-3-deoxyglucono/galactono-kinase.

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	KDG	B	L11 G34 S35 Y90 Y106 R108 I137 R166 G255 D258 D294	L10 G33 S34 Y89 Y105 R107 I136 R165 G254 D257 D293
BS02	KDF	B	G34 S35 Y90 Y106 R108 I137 R166 G255 D258 D294	G33 S34 Y89 Y105 R107 I136 R165 G254 D257 D293
BS03	ANP	B	R166 G228 S229 G231 A245 G255 A256 G257 D258 M260 S285 I289	R165 G227 S228 G230 A244 G254 A255 G256 D257 M259 S284 I288
BS04	AMP	B	K226 G228 G231 M260 S285 I289	K225 G227 G230 M259 S284 I288

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0005524 ATP binding
• GO:0008671 2-dehydro-3-deoxygalactonokinase activity
• GO:0008673 2-dehydro-3-deoxygluconokinase activity
• GO:0016301 kinase activity

Biological Process

• GO:0016310 phosphorylation
• GO:0046835 carbohydrate phosphorylation

External links

• PDB: RCSB:2var, PDBe:2var, PDBj:2var
• PDBsum: 2var
• PubMed: 19018105
• UniProt: Q97U29|KDGK_SACS2 2-dehydro-3-deoxygluconokinase/2-dehydro-3-deoxygalactonokinase (Gene Name=kdgK)