Structure of PDB 6pre Chain D Binding Site BS04

Receptor Information

>6pre Chain D (length=384) Species: 170187 (Streptococcus pneumoniae TIGR4)

TVTIEYFNQKKEMTKTLEEITRDFEKENPKIKVKVVNVPNAGEVLKTRVL
AGDVPDVVNIYPQSIELQEWAKAGVFEDLSNKDYLKRVKNGYAEKYAVNE
KVYNVPFTANAYGIYYNKDKFEELGLKVPETWDEFEQLVKDIVAKGQTPF
GIAGADAWTLNGYNQLAFATATGGGKEANQYLRYSQPNAIKLSDPIMKDD
IKVMDILRINGSKQKNWEGAGYTDVIGAFARGDVLMTPNGSWAITAINEQ
KPNFKIGTFMIPGKEKGQSLTVGAGDLAWSISATTKHPKEANAFVEYMTR
PEVMQKYYDVDGSPTAIEGVKQAGEDSPLAGMTEYAFTDRHLVWLQQYWT
SEADFHTLTMNYVLTGDKQGMVNDLNAFFNPMKA

Ligand information

• Ligand ID: GLA
• 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-PHYPRBDBSA-N
• SMILES:
  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(C1C(C(C(C(O1)O)O)O)O)O
  OpenEye OEToolkits 1.5.0: C([C@@H]1[C@@H]([C@@H]([C@H]([C@H](O1)O)O)O)O)O
  CACTVS 3.341: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  ACDLabs 10.04: OC1C(O)C(OC(O)C1O)CO
• Formula: C6 H12 O6
• Name: alpha-D-galactopyranose;
  alpha-D-galactose;
  D-galactose;
  galactose;
  ALPHA D-GALACTOSE
• ChEMBL: CHEMBL1233058
• ZINC: ZINC000000901155
• PDB chain: 6pre Chain H Residue 4

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6pre Molecular analysis of an enigmaticStreptococcus pneumoniaevirulence factor: The raffinose-family oligosaccharide utilization system.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): Y93 N193 W376 Q378 E384
• Binding residue (residue number reindexed from 1): Y61 N161 W344 Q346 E352
• Annotation score: 4

Gene Ontology

Biological Process

• GO:0055085 transmembrane transport

External links

• PDB: RCSB:6pre, PDBe:6pre, PDBj:6pre
• PDBsum: 6pre
• PubMed: 31591266
• UniProt: A0A0H2URJ7