Structure of PDB 5ik8 Chain B Binding Site BS01

Receptor Information

>5ik8 Chain B (length=378) Species: 10090 (Mus musculus)

AMVHGPCVAESEPALLTGSKQFGLSRNSHIAIAFDDTKVKNRLTIELEVR
TEAESGLLFYMARINHADFATVQLRNGFPYFSYDLGSGDTSTMIPTKIND
GQWHKIKIVRVKQEGILYVDDASSQTISPKKADILDVVGILYVGGLPINY
TTRRIGPVTYSLDGCVRNLHMEQAPVDLDQPTSSFHVGTCFANAESGTYF
DGTGFAKAVGGFKVGLDLLVEFEFRTTRPTGVLLGVSSQKMDGMGIEMID
EKLMFHVDNGAGRFTAIYDAEIPGHMCNGQWHKVTAKKIKNRLELVVDGN
QVDAQSPNSASTSADTNDPVFVGGFPGGLNQFGLTTNIRFRGCIRSLKLT
KGTGKPLEVNFAKALELRGVQPVSCPTT

Ligand information

• Ligand ID: XYS
• InChI: InChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3+,4-,5+/m1/s1
• InChIKey: SRBFZHDQGSBBOR-LECHCGJUSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C1C(C(C(C(O1)O)O)O)O
  CACTVS 3.341: O[CH]1CO[CH](O)[CH](O)[CH]1O
  OpenEye OEToolkits 1.5.0: C1[C@H]([C@@H]([C@H]([C@H](O1)O)O)O)O
  CACTVS 3.341: O[C@@H]1CO[C@H](O)[C@H](O)[C@H]1O
  ACDLabs 10.04: OC1C(O)COC(O)C1O
• Formula: C5 H10 O5
• Name: alpha-D-xylopyranose;
  alpha-D-xylose;
  D-xylose;
  xylose;
  XYLOPYRANOSE
• DrugBank: DB03389
• ZINC: ZINC000001529214
• PDB chain: 5ik8 Chain C Residue 2

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5ik8 Structural basis of laminin binding to the LARGE glycans on dystroglycan.
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): D2808 L2825 G2826
• Binding residue (residue number reindexed from 1): D68 L85 G86
• Annotation score: 4

External links

• PDB: RCSB:5ik8, PDBe:5ik8, PDBj:5ik8
• PDBsum: 5ik8
• PubMed: 27526028
• UniProt: Q60675|LAMA2_MOUSE Laminin subunit alpha-2 (Gene Name=Lama2)