Structure of PDB 6sp2 Chain D Binding Site BS05

Receptor Information

>6sp2 Chain D (length=365) Species: 7227 (Drosophila melanogaster)

PSCTNASSSRFMYAFILLVGTVLGAIALSPGLQDTLKKMPFCINSSLQVD
CEYALGYMAVYRVCFGMACFFALMSLIMLGVKSSRDPRSHIQNNFWPLKF
LICFGAAIGAIFIPDGSFGPAMMWVGLIGGLAFILVQLVIIVDFAHSLAE
NWIESAENSRGYYYALAGVTLLCYILSLTGITLLYIYFTTSTGCGINKFF
ISINLIFCLAISVISILPAVQERLPHSGLLQSSLVTLYTVYLTWSAVANN
PEKECNPGMFGHTTRVTFDTTNIIGLVVWLLCILYNCISSAVETEGVTYS
WSMFHLVFVCASLYVMMTLTNWYKPHSEIELFNGNEASMWVKIVSSWLGV
FIYGWSLAAPIVLTN

Ligand information

• Ligand ID: LMN
• InChI: InChI=1S/C47H88O22/c1-3-5-7-9-11-13-15-17-19-47(20-18-16-14-12-10-8-6-4-2,25-62-43-39(60)35(56)41(29(23-50)66-43)68-45-37(58)33(54)31(52)27(21-48)64-45)26-63-44-40(61)36(57)42(30(24-51)67-44)69-46-38(59)34(55)32(53)28(22-49)65-46/h27-46,48-61H,3-26H2,1-2H3/t27-,28-,29-,30-,31-,32-,33+,34+,35-,36-,37-,38-,39-,40+,41-,42-,43-,44-,45-,46-/m0/s1
• InChIKey: MADJBYLAYPCCOO-XYPZXBMFSA-N
• SMILES:
  ACDLabs 12.01: O(CC(CCCCCCCCCC)(CCCCCCCCCC)COC2OC(CO)C(OC1OC(CO)C(O)C(O)C1O)C(O)C2O)C4OC(C(OC3OC(CO)C(O)C(O)C3O)C(O)C4O)CO
  CACTVS 3.385: CCCCCCCCCCC(CCCCCCCCCC)(CO[CH]1O[CH](CO)[CH](O[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O)[CH](O)[CH]1O)CO[CH]3O[CH](CO)[CH](O[CH]4O[CH](CO)[CH](O)[CH](O)[CH]4O)[CH](O)[CH]3O
  CACTVS 3.385: CCCCCCCCCCC(CCCCCCCCCC)(CO[C@H]1O[C@@H](CO)[C@H](O[C@@H]2O[C@@H](CO)[C@H](O)[C@@H](O)[C@@H]2O)[C@@H](O)[C@@H]1O)CO[C@H]3O[C@@H](CO)[C@H](O[C@@H]4O[C@@H](CO)[C@H](O)[C@@H](O)[C@@H]4O)[C@@H](O)[C@H]3O
  OpenEye OEToolkits 1.9.2: CCCCCCCCCCC(CCCCCCCCCC)(COC1C(C(C(C(O1)CO)OC2C(C(C(C(O2)CO)O)O)O)O)O)COC3C(C(C(C(O3)CO)OC4C(C(C(C(O4)CO)O)O)O)O)O
  OpenEye OEToolkits 1.9.2: CCCCCCCCCCC(CCCCCCCCCC)(CO[C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)CO)O[C@H]2[C@H]([C@@H]([C@H]([C@@H](O2)CO)O)O)O)O)O)CO[C@@H]3[C@H]([C@@H]([C@H]([C@@H](O3)CO)O[C@H]4[C@H]([C@@H]([C@H]([C@@H](O4)CO)O)O)O)O)O
• Formula: C47 H88 O22
• Name: Lauryl Maltose Neopentyl Glycol;
  2,2-didecylpropane-1,3-bis-b-D-maltopyranoside
• PDB chain: 6sp2 Chain E Residue 1002

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6sp2 A bipartite structural organization defines the SERINC family of HIV-1 restriction factors.
• Resolution: 3.33 Å
• Binding residue (original residue number in PDB): G60 T64 L65 M68
• Binding residue (residue number reindexed from 1): G31 T35 L36 M39
• Annotation score: 1

Gene Ontology

Cellular Component

• GO:0016020 membrane

External links

• PDB: RCSB:6sp2, PDBe:6sp2, PDBj:6sp2
• PDBsum: 6sp2
• PubMed: 31907454
• UniProt: Q9U6P4