Structure of PDB 6qp8 Chain B Binding Site BS03

Receptor Information

>6qp8 Chain B (length=620) Species: 7227 (Drosophila melanogaster)

NLYYEPPCCTGEHVQDFSCGPLHYKTFYMDERNNALYVGAMDRIFRLNLR
NISQSICERDVLILEPTGSDILNCVSKGKREKVECRNHIRVIQPMNFNGQ
KLYVCGTNAHNPKDYVINANLTHLPRSQYVPGIGLGIGKCPYDPADNSTA
VYVENGNPFGLPALYAGTNAEFTKADSVIFRSDLYNLTNGRKEANFKRTV
KYDSKLLDKPNFVGSFEIGEFVYFFFREHAVEYINCGKAVYSRVARVCKN
DRGGKYMISQNWATYLKARMNCSISSEFPFYFNEIQSVYKMPTDDTKFYA
TFTTNTNGLIGSAVCSYDIRDINAAFDGKFKEQATSNSAWLPVLNSKVPE
PRPGTCHNDTATLPDSVLNFIRKHPLMDKAVDHEFGNPVFFKRDVILTKL
VVDKIRIDKLNQEFLVYFVATTSGHIYKIVQFMHYGQRHSNLVDIFEASP
HSEPIREMTLSHKTGSLYVATDHQVKQIDIAMCARRYDSCFRCVSDPYCG
WDKDVNACRPYQLGLLQDVANETSGICDTSVLRKKVTSSYGQTLHLSCFV
KMPEVLRKKQTRWYHHSTEKGRYEVRYTPTKYIDTNEGGLVLLAVNEGDG
GRYDSYLDGTLLCSYGVTVD

Ligand information

• Ligand ID: MAN
• InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3-,4+,5+,6+/m1/s1
• InChIKey: WQZGKKKJIJFFOK-PQMKYFCFSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C(C1C(C(C(C(O1)O)O)O)O)O
  CACTVS 3.341: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  CACTVS 3.341: OC[C@H]1O[C@H](O)[C@@H](O)[C@@H](O)[C@@H]1O
  OpenEye OEToolkits 1.5.0: C([C@@H]1[C@H]([C@@H]([C@@H]([C@H](O1)O)O)O)O)O
  ACDLabs 10.04: OC1C(O)C(OC(O)C1O)CO
• Formula: C6 H12 O6
• Name: alpha-D-mannopyranose;
  alpha-D-mannose;
  D-mannose;
  mannose
• ChEMBL: CHEMBL365590
• ZINC: ZINC000003860903
• PDB chain: 6qp8 Chain L Residue 6

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6qp8 Diversity of oligomerization in Drosophila semaphorins suggests a mechanism of functional fine-tuning.
• Resolution: 2.33 Å
• Binding residue (original residue number in PDB): K381 W390 D428
• Binding residue (residue number reindexed from 1): K331 W340 D378
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0030215 semaphorin receptor binding

External links

• PDB: RCSB:6qp8, PDBe:6qp8, PDBj:6qp8
• PDBsum: 6qp8
• PubMed: 31417095
• UniProt: A0A0B4KG38