Structure of PDB 8jq4 Chain D Binding Site BS04

Receptor Information
>8jq4 Chain D (length=416) Species: 47715 (Lacticaseibacillus rhamnosus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MVKPEEVDKAYEVAKQRYAEIGVDTDAAMKELEKVPLSVHCWQGDDIHGF
LFPSGNYPGIARTPDELAGDMHEALSLIPGKHRVQLHAIYAVTDKKRDLD
TLEPEDFDYWIDWAKQEGVGLDFNGTFFSHPMVKDNMTVSSPDPKVRDFW
IRHGKISREISNYIGEKLGSQVVNNFWLPDGFKDNPIDKKTPRLRLLKAL
DEIIKDPLPEKNTIESFEGKLFGTGIESYTTGSHEFYQNYAISRNKLWTI
DAGHFHPTEDVSDKFSAFFPFGKGLFMHVSRPVRWDSDHVVIMDDALIRI
TRSLVRDGYLDRTHIGLDFFDATINRVAAWVVGARATQKSLLQAMLAPID
QLKKDELNADFTTRLIETEELKSFPFGAVWDKFCQDHNTPVGFDWMNNIH
QYEKDVQFKRDAKLVH
Ligand information
Ligand IDRM4
InChIInChI=1S/C6H12O5/c1-2-3(7)4(8)5(9)6(10)11-2/h2-10H,1H3/t2-,3-,4+,5+,6-/m0/s1
InChIKeySHZGCJCMOBCMKK-YJRYQGEOSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C[C@H]1[C@@H]([C@H]([C@H]([C@H](O1)O)O)O)O
CACTVS 3.341C[C@@H]1O[C@H](O)[C@H](O)[C@H](O)[C@H]1O
ACDLabs 10.04OC1C(O)C(OC(O)C1O)C
OpenEye OEToolkits 1.5.0CC1C(C(C(C(O1)O)O)O)O
CACTVS 3.341C[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
FormulaC6 H12 O5
Namebeta-L-rhamnopyranose;
beta-L-rhamnose;
6-deoxy-beta-L-mannopyranose;
L-rhamnose;
rhamnose
ChEMBL
DrugBank
ZINCZINC000003861281
PDB chain8jq4 Chain D Residue 504 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8jq4 X-ray structure and characterization of a probiotic Lactobacillus rhamnosus Probio-M9 L-rhamnose isomerase.
Resolution1.61 Å
Binding residue
(original residue number in PDB)		N255 K256
Binding residue
(residue number reindexed from 1)		N245 K246
Annotation score5
Enzymatic activity
Enzyme Commision number 5.3.1.14: L-rhamnose isomerase.
Gene Ontology
Molecular Function
GO:0008740 L-rhamnose isomerase activity
GO:0016853 isomerase activity
GO:0030145 manganese ion binding
GO:0046872 metal ion binding
Biological Process
GO:0019299 rhamnose metabolic process
GO:0019301 rhamnose catabolic process
GO:0019324 L-lyxose metabolic process
Cellular Component
GO:0005737 cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8jq4, PDBe:8jq4, PDBj:8jq4
PDBsum8jq4
PubMed38430263
UniProtA0A171J5T1

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