Structure of PDB 1rdm Chain 2 Binding Site BS01

Receptor Information

>1rdm Chain 2 (length=112) Species: 10117 (Rattus rattus)

KKYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLG
ITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVP
CSDSFLVVCEFS

Ligand information

• Ligand ID: MMA
• InChI: InChI=1S/C7H14O6/c1-12-7-6(11)5(10)4(9)3(2-8)13-7/h3-11H,2H2,1H3/t3-,4-,5+,6+,7+/m1/s1
• InChIKey: HOVAGTYPODGVJG-VEIUFWFVSA-N
• SMILES:
  CACTVS 3.341: CO[C@H]1O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]1O
  ACDLabs 10.04: OC1C(O)C(O)C(OC1OC)CO
  OpenEye OEToolkits 1.5.0: CO[C@@H]1[C@H]([C@H]([C@@H]([C@H](O1)CO)O)O)O
  CACTVS 3.341: CO[CH]1O[CH](CO)[CH](O)[CH](O)[CH]1O
  OpenEye OEToolkits 1.5.0: COC1C(C(C(C(O1)CO)O)O)O
• Formula: C7 H14 O6
• Name: methyl alpha-D-mannopyranoside;
  O1-METHYL-MANNOSE;
  methyl alpha-D-mannoside;
  methyl D-mannoside;
  methyl mannoside
• ChEMBL: CHEMBL195368
• DrugBank: DB01979
• ZINC: ZINC000004261920
• PDB chain: 1rdm Chain 2 Residue 1

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1rdm Structural analysis of monosaccharide recognition by rat liver mannose-binding protein.
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): E190 N192 E198 N210
• Binding residue (residue number reindexed from 1): E77 N79 E85 N97
• Annotation score: 4
• Binding affinity: MOAD: Ki=5.7mM

External links

• PDB: RCSB:1rdm, PDBe:1rdm, PDBj:1rdm
• PDBsum: 1rdm
• PubMed: 8557671
• UniProt: P08661|MBL2_RAT Mannose-binding protein C (Gene Name=Mbl2)