Structure of PDB 3edk Chain B

Receptor sequence

>3edkB (length=597) Species: 197856 (Flavobacterium sp. 92)

PTAIEHMEPPFWWAGMQHKGLQLMVHGRDIGRMEAALDYPGVRLVSPTRV
PNANYLFVDLEIGPEAQPGSFDIVFKGDGRSERYRYRLLAREQGSAQRQG
FGPGDAIYQIMPDRFANGDPSNDNVAGMREQADRRHGGGRHGGDIRGTID
HLDYIAGLGFTQLWPTPLVENDAAAYSYHGYAATDHYRIDPRYGSNEDFV
RLSTEARKRGMGLIQDVVLSHIGKHHWWMKDLPTPDWINYGGKFVPTQHH
RVAVQDPYAAQADSENFTKGWFVEGMPDLNQTNPLVANYLIQNNIWWIEY
AGLSGLRIDTYGYSDGAFLTEYTRRLMAEYPRLNMVGQEWSTRVPVVARW
QRGKANFDGYTSHLPSLMDFPLVDAMRNALSKTGEENGLNEVYETLSLDY
LYPEPQNLVLFGGNHDMARMFSAAGEDFDRWRMNLVFLMTMPRIPQFYSG
DEILMTSTVKGRDDASYRRDFPGGWAGDKANAFSGAGLTSQQRAAQDLVR
KLANWRKNQPVIHNGRLMHFGPEENTWVYFRYNKDKRIMVAMNNNDKPMT
LPTARFQEMLKGAPSGVDFLSGKTVGLGRELRLAPKSVVVIELPGLP

3D structure

• PDB: 3edk Structural base for enzymatic cyclodextrin hydrolysis
• Chain: B
• Resolution: 1.77 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D218 R309 D311 Q340 H417 D418
• Catalytic site (residue number reindexed from 1): D216 R307 D309 Q338 H415 D416
• Enzyme Commision number: 3.2.1.54: cyclomaltodextrinase.

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	GLC	B	R253 F274 Q340 R464	R251 F272 Q338 R462
BS02	GLC	B	Y183 H223 D311 Q340 H417 D418	Y181 H221 D309 Q338 H415 D416
BS03	GLC	B	H181 Y183 F274 M278 R464 D466 R470	H179 Y181 F272 M276 R462 D464 R468
BS04	CA	B	S222 T270 D280 Y315	S220 T268 D278 Y313
BS05	CA	B	N119 D121 N124 D125 G144 D146	N117 D119 N122 D123 G142 D144

Gene Ontology

Biological Process

• GO:0005975 carbohydrate metabolic process

External links

• PDB: RCSB:3edk, PDBe:3edk, PDBj:3edk
• PDBsum: 3edk
• PubMed: 19014948
• UniProt: Q8KKG0