Structure of PDB 2jf4 Chain A Binding Site BS01

Receptor Information
>2jf4 Chain A (length=500) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PQPPDILLGPLFNDVQNAKLFPDQKTFADAVPNSDPLMILADYRMQQNQS
GFDLRHFVNVNFTLPQSLREHIDGLWPVLTRSTENTEKWDSLLPLPEPYV
VPGGRFREVYYWDSYFTMLGLAESGHWDKVADMVANFAHEIDTYGHIPNG
NRSYYLSRSQPPFFALMVELLAQHEGDAALKQYLPQMQKEYAYWMDGVEN
LQAGQQEKRVVKLQDGTLLNRYWDDRDTPRPESWVEDIATAKSNPNRPAT
EIYRDLRSAAASGWDFSSRWMDNPQQLNTLRTTSIVPVDLNSLMFKMEKI
LARASKAAGDNAMANQYETLANARQKGIEKYLWNDQQGWYADYDLKSHKV
RNQLTAAALFPLYVNAAAKDRANKMATATKTHLLQPGGLNTTSVKSGQQW
DAPNGWAPLQWVATEGLQNYGQKEVAMDISWHFLTNVQHTYDREKKLVEK
YDVSTTGTGGGGGEYPLQDGFGWTNGVTLKMLDLICPKEQPCDNVPATRP
Ligand information
Ligand IDVDM
InChIInChI=1S/C14H25NO8/c16-3-5-1-7(11(20)13(22)9(5)18)15-8-2-6(4-17)10(19)14(23)12(8)21/h1,6-23H,2-4H2/t6-,7+,8+,9-,10-,11+,12+,13+,14+/m1/s1
InChIKeyYCJYNBLLJHFIIW-MBABXGOBSA-N
SMILES
SoftwareSMILES
CACTVS 3.341OC[CH]1C[CH](N[CH]2C=C(CO)[CH](O)[CH](O)[CH]2O)[CH](O)[CH](O)[CH]1O
ACDLabs 10.04OC2C(NC1C=C(CO)C(O)C(O)C1O)CC(C(O)C2O)CO
OpenEye OEToolkits 1.5.0C1C(C(C(C(C1NC2C=C(C(C(C2O)O)O)CO)O)O)O)CO
OpenEye OEToolkits 1.5.0C1[C@@H]([C@H]([C@@H]([C@H]([C@H]1N[C@H]2C=C([C@H]([C@@H]([C@H]2O)O)O)CO)O)O)O)CO
CACTVS 3.341OC[C@H]1C[C@H](N[C@H]2C=C(CO)[C@@H](O)[C@H](O)[C@H]2O)[C@H](O)[C@@H](O)[C@@H]1O
FormulaC14 H25 N O8
Name(1S,2S,3R,6S)-4-(HYDROXYMETHYL)-6-{[(1S,2S,3S,4R,5R)-2,3,4-TRIHYDROXY-5-(HYDROXYMETHYL)CYCLOHEXYL]AMINO}CYCLOHEX-4-ENE-1,2,3-TRIOL;
VALIDOXYLAMINE
ChEMBLCHEMBL1236649
DrugBank
ZINCZINC000016052241
PDB chain2jf4 Chain A Residue 1548 [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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PDB2jf4 Molecular Basis for Trehalase Inhibition Revealed by the Structure of Trehalase in Complex with Potent Inhibitors.
Resolution2.2 Å
Binding residue
(original residue number in PDB)
F153 Y157 W159 D160 N196 R205 R277 E279 G310 D312 W447 E511 Y512 F518 W520
Binding residue
(residue number reindexed from 1)
F106 Y110 W112 D113 N149 R158 R230 E232 G263 D265 W400 E464 Y465 F471 W473
Annotation score1
Binding affinityMOAD: Kd=7nM
PDBbind-CN: -logKd/Ki=8.15,Kd=7nM
Enzymatic activity
Enzyme Commision number 3.2.1.28: alpha,alpha-trehalase.
Gene Ontology
Molecular Function
GO:0004555 alpha,alpha-trehalase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0005991 trehalose metabolic process
GO:0005993 trehalose catabolic process
GO:0006974 DNA damage response
GO:0071474 cellular hyperosmotic response
Cellular Component
GO:0030288 outer membrane-bounded periplasmic space
GO:0042597 periplasmic space

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:2jf4, PDBe:2jf4, PDBj:2jf4
PDBsum2jf4
PubMed17455176
UniProtP13482|TREA_ECOLI Periplasmic trehalase (Gene Name=treA)

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