Structure of PDB 5do8 Chain B Binding Site BS01

Receptor Information
>5do8 Chain B (length=553) Species: 169963 (Listeria monocytogenes EGD-e) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EKDWWKKSVVYQIYPKSFNDSNGDGVGDIQGIIEKLDYLKELGVDVIWLS
PVYDSPQDDNGYDIRDYQKIYEEYGDMATFDQLLQGLHDRDMKLVMDLVV
NHTSDEHKWFEESRKSKDNPYRDYYFWREENEINNWGSIFSGPAWELDEK
TGEYYLHLFSKKQPDLNWENPKLRQDVYNMMKFWLDKGIDGFRMDVINFI
SKNTDFPDGPVPDGQIYGDAGNDFCNGPRIHEFLQEMNQEVTSKYDVMTV
GEMPGASTTDAQIYTNPANNEVDMIFTFEHMNLDSDSDNKWDLKPIYLPD
LKENMSEWQVALQENGWNSLYWNNHDQPRIVSRFGNDNRFRVRSAKMLAT
CLHMMKGTPYIYQGEEIGMTNVHFETLDDYRDIETLNMYKERKEQGHSHE
SIMQSIYTKGRDNARTPYQWDNSENAGFTTGTPWLKVNPRYTEINNEEAL
KNPDSIFYYYQNLIKLRKTTEIITTGNYRLLLPKDEAIFAYERYTENEKL
VVLCNFTEEEQVISDETILNEIQKGSVLVNNVPNIIEGTLRPYEAIVYQI
KGA
Ligand information
Ligand IDBGC
InChIInChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3-,4+,5-,6-/m1/s1
InChIKeyWQZGKKKJIJFFOK-VFUOTHLCSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C(C1C(C(C(C(O1)O)O)O)O)O
CACTVS 3.370OC[C@H]1O[C@@H](O)[C@H](O)[C@@H](O)[C@@H]1O
CACTVS 3.370OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
OpenEye OEToolkits 1.7.6C([C@@H]1[C@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O)O
ACDLabs 12.01OC1C(O)C(OC(O)C1O)CO
FormulaC6 H12 O6
Namebeta-D-glucopyranose;
beta-D-glucose;
D-glucose;
glucose
ChEMBLCHEMBL1614854
DrugBankDB02379
ZINCZINC000003833800
PDB chain5do8 Chain B Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB5do8 Structure to function of an alpha-glucan metabolic pathway that promotes Listeria monocytogenes pathogenesis.
Resolution1.8 Å
Binding residue
(original residue number in PDB)		D61 Y64 H104 F161 R195 D197 E254 H327 D328 R413
Binding residue
(residue number reindexed from 1)		D59 Y62 H102 F159 R193 D195 E252 H325 D326 R411
Annotation score4
Enzymatic activity
Catalytic site (original residue number in PDB) D99 R195 D197 E254 H327 D328
Catalytic site (residue number reindexed from 1) D97 R193 D195 E252 H325 D326
Enzyme Commision number 3.2.1.10: oligo-1,6-glucosidase.
Gene Ontology
Molecular Function
GO:0004556 alpha-amylase activity
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0009313 oligosaccharide catabolic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5do8, PDBe:5do8, PDBj:5do8
PDBsum5do8
PubMed27819654
UniProtQ8YAE6

[Back to BioLiP]