Structure of PDB 3vin Chain A Binding Site BS01

Receptor Information
>3vin Chain A (length=472) Species: 60586 (Neotermes koshunensis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TVYTFPDEFKLGAATASYQIEGAWDENGKGPNIWDTLTHEHPDYVVDGAT
GDIADDSYHLYKEDVKILKELGAQVYRFSISWARVLPEGHDNIVNQDGID
YYNNLINELLANGIEPMVTMYHWDLPQALQDLGGWPNLVLAKYSENYARV
LFKNFGDRVKLWLTFNDPLTFMDGYASEIGMAPSINTPGIGDYLAAHTVI
HAHARIYHLYDQEFRAEQGGKVGISLNINWCEPATNSAEDRASCENYQQF
NLGLYAHPIFTEEGDYPAVLKDRVSRNSADEGYTDSRLPQFTAEEVEYIR
GTHDFLGINFYTALLGKSGVEGYEPSRYRDSGVILTQDAAWPISASSWLK
VVPWGFRKELNWIKNEYNNPPVFITENGFSDYGGLNDTGRVHYYTEHLKE
MLKAIHEDGVNVIGYTAWSLMDNFEWLRGYSEKFGIYAVDFEDPARPRIP
KESAKVLAEIMNTRKIPERFRD
Ligand information
Ligand IDGBH
InChIInChI=1S/C14H28N2O9S/c17-9-10-11(18)12(19)13(20)14(25-10)24-7-5-15-1-3-16(4-2-15)6-8-26(21,22)23/h10-14,17-20H,1-9H2,(H,21,22,23)/t10-,11-,12+,13-,14-/m1/s1
InChIKeyRRNQQJMHWBFGHX-RKQHYHRCSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.2C1CN(CCN1CCOC2C(C(C(C(O2)CO)O)O)O)CCS(=O)(=O)O
CACTVS 3.370OC[CH]1O[CH](OCCN2CCN(CC2)CC[S](O)(=O)=O)[CH](O)[CH](O)[CH]1O
OpenEye OEToolkits 1.7.2C1CN(CCN1CCO[C@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O)CCS(=O)(=O)O
ACDLabs 12.01O=S(=O)(O)CCN2CCN(CCOC1OC(C(O)C(O)C1O)CO)CC2
CACTVS 3.370OC[C@H]1O[C@@H](OCCN2CCN(CC2)CC[S](O)(=O)=O)[C@H](O)[C@@H](O)[C@@H]1O
FormulaC14 H28 N2 O9 S
Name2-{4-[2-(beta-D-glucopyranosyloxy)ethyl]piperazin-1-yl}ethanesulfonic acid;
2-{4-[2-(beta-D-glucosyloxy)ethyl]piperazin-1-yl}ethanesulfonic acid;
2-{4-[2-(D-glucosyloxy)ethyl]piperazin-1-yl}ethanesulfonic acid;
2-{4-[2-(glucosyloxy)ethyl]piperazin-1-yl}ethanesulfonic acid
ChEMBL
DrugBank
ZINCZINC000098208931
PDB chain3vin Chain A Residue 507 [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]
PDB3vin High-resolution structures of Neotermes koshunensis beta-glucosidase mutants provide insights into the catalytic mechanism and the synthesis of glucoconjugates
Resolution1.13 Å
Binding residue
(original residue number in PDB)
Q45 H148 D193 T196 Y337 W374 E402 W444 E451 W452 F460
Binding residue
(residue number reindexed from 1)
Q19 H122 D167 T170 Y311 W348 E376 W418 E425 W426 F434
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) R103 H148 D193 T196 N335 Y337 E402
Catalytic site (residue number reindexed from 1) R77 H122 D167 T170 N309 Y311 E376
Enzyme Commision number 3.2.1.21: beta-glucosidase.
Gene Ontology
Molecular Function
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0008422 beta-glucosidase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
Biological Process
GO:0005975 carbohydrate metabolic process

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:3vin, PDBe:3vin, PDBj:3vin
PDBsum3vin
PubMed22751668
UniProtQ8T0W7

[Back to BioLiP]