Structure of PDB 1pyy Chain A Binding Site BS02

Receptor Information
>1pyy Chain A (length=607) Species: 171101 (Streptococcus pneumoniae R6) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PAKRGTIYDRNGVPIAEDATSYNVYANKVAEVFHKYLDMEESYVREQLVS
FGAKGNGITYANMMSPNRSYPNGQFASSFIGLAQLHENEDGSKSLLGTSG
MESSLNSILAGTDDGKDVYTTISSPLQSFMETQMDAFQEKVKGKYMTATL
VSAKTGEILATTQRPTFDADTKEGITEDFVWRDILYQSNYEPGSAFKVMM
LAAAIDNNTFPGGEVFNSSELKIADATIRDWDVNEGLTGGRMMTFSQGFA
HSSNVGMTLLEQKMGDATWLDYLNRFKFGVPTRFGLTDEYAGQLPADNIV
NIAQSSFGQGISVTQTQMIRAFTAIANDGVMLEPKFISAIYDPNDQTARK
SQKEIVGNPVSKDAASLTRTNMVLVGTDPVYGTMYNHSTGKPTVTVPGQN
VALKSGTAQIADEKNGGYLVGLTDYIFSAVSMSPAENPDFILYVTVQQPE
HYSGIQLGEFANPILERASAMKDSLNLQTTAKALEQVSQQSPYPMPSVKD
ISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNLAPNQQVLILSDKA
EEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKDIKK
ITLTLGD
Ligand information
Ligand IDTRV
InChIInChI=1S/C14H26O7/c1-2-3-4-5-6-7-11(16)20-8-10-12(17)13(18)14(19,9-15)21-10/h10,12-13,15,17-19H,2-9H2,1H3/t10-,12-,13+,14-/m1/s1
InChIKeyUJGLCJCSHGMKFA-RUZUBIRVSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7CCCCCCCC(=O)OCC1C(C(C(O1)(CO)O)O)O
CACTVS 3.385CCCCCCCC(=O)OC[C@H]1O[C@](O)(CO)[C@@H](O)[C@@H]1O
OpenEye OEToolkits 2.0.7CCCCCCCC(=O)OC[C@@H]1[C@H]([C@@H]([C@](O1)(CO)O)O)O
ACDLabs 12.01OC1(CO)C(O)C(O)C(COC(=O)CCCCCCC)O1
CACTVS 3.385CCCCCCCC(=O)OC[CH]1O[C](O)(CO)[CH](O)[CH]1O
FormulaC14 H26 O7
Name6-O-octanoyl-beta-D-fructofuranose
ChEMBL
DrugBank
ZINC
PDB chain1pyy Chain B Residue 2 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1pyy The Structural Modifications Induced by the M339F Substitution in PBP2x from Streptococcus pneumoniae Further Decreases the Susceptibility to beta-Lactams of Resistant Strains
Resolution2.42 Å
Binding residue
(original residue number in PDB)
T370 I371 R372 W374 Q447 F450 Q452 Q552 Y561
Binding residue
(residue number reindexed from 1)
T227 I228 R229 W231 Q304 F307 Q309 Q409 Y418
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0008658 penicillin binding
Biological Process
GO:0008360 regulation of cell shape
GO:0009252 peptidoglycan biosynthetic process
GO:0046677 response to antibiotic
GO:0051301 cell division
GO:0071555 cell wall organization
Cellular Component
GO:0005886 plasma membrane

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:1pyy, PDBe:1pyy, PDBj:1pyy
PDBsum1pyy
PubMed12923202
UniProtP59676|PBPX_STRR6 Penicillin-binding protein 2X (Gene Name=pbpX)

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