Structure of PDB 5ynd Chain A Binding Site BS06

Receptor Information
>5ynd Chain A (length=1055) Species: 573 (Klebsiella pneumoniae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DPQDVVVRLPDVAVPGEAVQASARQAVIHLVDIAGITSSTPADYATKNLY
LWNNETCDALSAPVADWNDVSTTPTGSDKYGPYWVIPLTKESGCINVIVR
DGTNKLIDSDLRVSFSDFTDRTVSVIAGNSAVYDSRADAFRAAFGVALAD
AHWVDKTTLLWPGGENKPIVRLYYSHSSKVAADSNGEFSDKYVKLTPTTV
NQQVSMRFPHLASYPAFKLPDDVNVDELLQGETVAIAAESDGILSSATQV
QTAGVLDDTYAAAAEALSYGAQLTDSGVTFRVWAPTAQQVELVIYSADKK
VIASHPMTRDSASGAWSWQGGSDLKGAFYRYAMTVYHPQSRKVEQYEVTD
PYAHSLSTNSEYSQVVDLNDSALKPEGWDGLTMPHAQKTKADLAKMTIHE
SHIRDLSAWDQTVPAELRGKYLALTAQESNMVQHLKQLSASGVTHIELLP
VFDLATVNEFSDKVADIQQPFSRLCEVNSAVKSSEFAGYCDSGSTVEEVL
TQLKQNDSKDNPQVQALNTLVAQTDSYNWGYDPFHYTVPEGSYATDPEGT
ARIKEFRTMIQAIKQDLGMNVIMDVVYNHTNAAGPTDRTSVLDKIVPWYY
QRLNETTGSVESATCCSDSAPEHRMFAKLIADSLAVWTTDYKIDGFRFDL
MLYHPKAQILSAWERIKALNPDIYFFGEGWDSNQSDRFEIASQINLKGTG
IGTFSDRLRDAVRGGGPFDSGDALRQNQGVGSGAGVLPNELTTLSDDQAR
HLADLTRLGMAGNLADFVLIDKDGAVKRGSEIDYNGAPGGYAADPTEVVN
YVSKHDNQTLWDMISYKAAQEADLDTRVRMQAVSLATVMLGQGIAFDQQG
SELLRSKSFTRDSYDSGDWFNRVDYSLQDNNYNVGMPRSSDDGSNYDIIA
RVKDAVATPGETELKQMTAFYQELTALRKSSPLFTLGDGATVMKRVDFRN
TGADQQTGLLVMTIDDGMQAGASLDSRVDGIVVAINAAPESRTLQDFAGT
SLQLSAIQQAAGDRSLASGVQVAADGSVTLPAWSVAVLELPQGESQGAGL
PVSSK
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain5ynd Chain A Residue 1105 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5ynd Elucidation of the mechanism of interaction between Klebsiella pneumoniae pullulanase and cyclodextrin
Resolution2.227 Å
Binding residue
(original residue number in PDB)		D714 R715
Binding residue
(residue number reindexed from 1)		D686 R687
Annotation score4
Enzymatic activity
Enzyme Commision number 3.2.1.41: pullulanase.
Gene Ontology
Molecular Function
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0016798 hydrolase activity, acting on glycosyl bonds
GO:0030246 carbohydrate binding
GO:0051060 pullulanase activity
Biological Process
GO:0005975 carbohydrate metabolic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5ynd, PDBe:5ynd, PDBj:5ynd
PDBsum5ynd
PubMed30387770
UniProtW9BQ28

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