Structure of PDB 3suu Chain A Binding Site BS01

Receptor Information
>3suu Chain A (length=504) Species: 192895 (Paenibacillus sp. TS12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HHHHSSGLVPRGSHMSQPSILPKPVSYTVGSGQFVLTKNASIFVAGNNVG
ETDELFNIGQALAKKLNASTGYTISVVKSNQPTAGSIYLTTVGGNAALGN
EGYDLITTSNQVTLTANKPEGVFRGNQTLLQLLPAGIEKNTVVSGVQWVI
PHSNISDKPEYEYRGLMLDVARHFFTVDEVKRQIDLASQYKINKFHMHLS
DDQGWRIEIKSWPDLIEIGSKGQVGGGPGGYYTQEQFKDIVSYAAERYIE
VIPEIDMPGHTNAALASYGELNPDGKRKAMRTDTAVGYSTLMPRAEITYQ
FVEDVISELAAISPSPYIHLGGDESNATSAADYDYFFGRVTAIANSYGKK
VVGWDPSDTSSGATSDSVLQNWTCSASTGTAAKAKGMKVIVSPANAYLDM
KYYSDSPIGLQWRGFVNTNRAYNWDPTDCIKGANIYGVESTLWTETFVTQ
DHLDYMLYPKLLSNAEVGWTARGDRNWDDFKERLIEHTPRLQNKGIKFFA
DPIV
Ligand information
Ligand IDOGN
InChIInChI=1S/C15H19N3O7/c1-8(20)16-11-13(22)12(21)10(7-19)24-14(11)18-25-15(23)17-9-5-3-2-4-6-9/h2-6,10-13,19,21-22H,7H2,1H3,(H,16,20)(H,17,23)/b18-14-/t10-,11-,12+,13-/m1/s1
InChIKeyPBLNJFVQMUMOJY-UYZOWNTJSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.2CC(=O)NC1C(C(C(OC1=NOC(=O)Nc2ccccc2)CO)O)O
OpenEye OEToolkits 1.7.2CC(=O)N[C@@H]\1[C@H]([C@H]([C@H](O/C1=N\OC(=O)Nc2ccccc2)CO)O)O
CACTVS 3.370CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)OC1=NOC(=O)Nc2ccccc2
ACDLabs 12.01O=C(O\N=C1/OC(CO)C(O)C(O)C1NC(=O)C)Nc2ccccc2
CACTVS 3.370CC(=O)N[C@@H]\1[C@@H](O)[C@@H](O)[C@@H](CO)OC\1=N\OC(=O)Nc2ccccc2
FormulaC15 H19 N3 O7
Name[(Z)-[(3R,4R,5R,6R)-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-ylidene]amino] N-phenylcarbamate;
Gal-PUGNAc
ChEMBL
DrugBank
ZINCZINC000044154749
PDB chain3suu Chain A Residue 2000 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3suu Gaining insight into the inhibition of glycoside hydrolase family 20 exo-beta-N-acetylhexosaminidases using a structural approach
Resolution1.6 Å
Binding residue
(original residue number in PDB)
R170 D321 E322 W370 Y395 D397 W410 W441 E443
Binding residue
(residue number reindexed from 1)
R172 D323 E324 W372 Y397 D399 W412 W443 E445
Annotation score1
Binding affinityMOAD: Ki=0.003uM
PDBbind-CN: -logKd/Ki=8.52,Ki=3nM
Enzymatic activity
Catalytic site (original residue number in PDB) L19 Y25 D321 E322
Catalytic site (residue number reindexed from 1) L21 Y27 D323 E324
Enzyme Commision number 3.2.1.52: beta-N-acetylhexosaminidase.
Gene Ontology
Molecular Function
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0004563 beta-N-acetylhexosaminidase activity
Biological Process
GO:0005975 carbohydrate metabolic process

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:3suu, PDBe:3suu, PDBj:3suu
PDBsum3suu
PubMed22367352
UniProtD2KW09

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