Structure of PDB 1drk Chain A Binding Site BS01

Receptor Information
>1drk Chain A (length=271) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANV
QDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRQATKGEVVSH
IASDNVLGGKIAGDYIAKKAGEGAKVIELQGTAATSAARERGEGFQQAVA
AHKFNVLASQPADFDRIKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRA
LQTAGKSDVMVVGFDGTPDGEKAVNDGKLAATIAQLPDQIGAKGVETADK
VLKGEKVQAKYPVDLKLVVKQ
Ligand information
Ligand IDRIP
InChIInChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3-,4-,5-/m1/s1
InChIKeySRBFZHDQGSBBOR-TXICZTDVSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C1C(C(C(C(O1)O)O)O)O
OpenEye OEToolkits 1.5.0C1[C@H]([C@H]([C@H]([C@@H](O1)O)O)O)O
CACTVS 3.341O[CH]1CO[CH](O)[CH](O)[CH]1O
CACTVS 3.341O[C@@H]1CO[C@@H](O)[C@H](O)[C@@H]1O
ACDLabs 10.04OC1C(O)COC(O)C1O
FormulaC5 H10 O5
Namebeta-D-ribopyranose;
beta-D-ribose;
D-ribose;
ribose;
RIBOSE(PYRANOSE FORM)
ChEMBLCHEMBL1159662
DrugBankDB04286
ZINCZINC000004097544
PDB chain1drk Chain A Residue 272 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1drk Probing protein-protein interactions. The ribose-binding protein in bacterial transport and chemotaxis.
Resolution2.0 Å
Binding residue
(original residue number in PDB)		N13 F15 F16 D89 R90 R141 F164 N190 D215 Q235
Binding residue
(residue number reindexed from 1)		N13 F15 F16 D89 R90 R141 F164 N190 D215 Q235
Annotation score4
Binding affinityMOAD: Kd=0.15uM
PDBbind-CN: -logKd/Ki=6.82,Kd=0.15uM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0030246 carbohydrate binding
GO:0048029 monosaccharide binding
Biological Process
GO:0006935 chemotaxis
GO:0015752 D-ribose transmembrane transport
GO:0050918 positive chemotaxis
Cellular Component
GO:0016020 membrane
GO:0030288 outer membrane-bounded periplasmic space
GO:0042597 periplasmic space
GO:0055052 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:1drk, PDBe:1drk, PDBj:1drk
PDBsum1drk
PubMed7982928
UniProtP02925|RBSB_ECOLI Ribose import binding protein RbsB (Gene Name=rbsB)

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