Structure of PDB 5nrg Chain I Binding Site BS01

Receptor Information
>5nrg Chain I (length=127) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KLHELKPAEGSRKERNRVGRGVATGNGKTSGRGHKGQKARSGGGVRPGFE
GGQLPLFRRLPKRGFTNINRKEYAIVNLDQLNKFEDGTEVTPALLVESGV
VKNEKSGIKILGNGSLDKKLTVKAHKF
Ligand information
>5nrg Chain X (length=2710) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauauguauacauagcauaucagaaggcacacccggagaacugaaacauc
uuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggcga
gcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguugagga
cacucuaugaguuacaaaggacgacauuagacgaaucaucuggaaagaug
aaucaaagaagguaauaauccuguagucgaaaauguugucucucuugagu
ggauccugaguacgacggagcacgugaaauuccgucggaaucugggagga
ccaucuccuaaggcuaaauacucucuagugaccgauagugaaccaguacc
gugagggaaaggugaaaagcaccccggaaggggagugaaauagaaccuga
aaccgugugcuuacaaguagucagagcccguuaaugggugauggcgugcc
uuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagcagua
aauguggagccguagcgaaagcgagucugaauagggcguuuaguauuugg
ucguagacccgaaaccaggugaucuacccuuggucagguugaaguucagg
cugaauggaggaccgaaccgacuuacguugaaaagugagcggaugaacug
aggguagcggagaaauuccaaucgaaccuggagauagcugguucucuccg
aaauagcuuuagggcuagccucaagugaugauuauuggagguagagcacu
guuuggacgaggggguuaccgaauucagacaaacuccgaaugccaauuaa
uuuaacuugggagucagaacaugggugauaagguccguguucgaaaggga
aacagcccagaccaccagcuaaggucccaaaauauauguuaaguggaaaa
ggauguggcguugcccagacaacuagcucauagucgagugacacugcgcc
gaaaauguaccggggcuaaacauauuaccgaagcuguggauuguccuugg
acaaugguaggagagcguucuaagggcguugaagcaugaucguaaggaca
uguggagcgcuuagaagugagaaugccggugugaguagcgaaagacgggu
gagaaucccguccaccgauugacuaagguuuccagaggaaggcucguccg
cucuggguuagucggguccuaagcugaggccgacaggcguaggcgaugga
uaacagguugauauuccuguaccaccuauaaucguaaucgauggggggac
gcaguaggauaggcgaagcgugcgauuggaugcacgucuaagcaguaagg
cugaguauccgguacucgaggcugagcugugauggggagagagucguuga
uuucacacugccgagaaaagccucuagauagauaggugcccguaccgcaa
accgacacagguagucaagaugagaauucuaaggugagcgagcgaacucu
cguuaaggaacucggcaaaaugaccccguaacuucgggagaaggggugcu
cuuuaggguuaacgcccagaagagccgcagugaauaggcccaagcgacug
uuuaucaaaaacacaggucucugcuaaaccguaaggugauguauaggggc
ugacgccugcccggugcuggaagguuaagaggagugguuagcugcgaagc
uacgaaucgaagccccaguaaacggcggcccuaagguagcgaaauuccuu
gucggguaaguuccgacccgcacgaaaggcguaacgauuugggcacuguc
ucaacgagagacucggugaaaucauaguaccugugaagaugcagguuacc
cgcgacaggacggaaagaccccguggagcuuuacuguagccugauauuga
aauucuggcuuucuaacccgcaccacuuaucguggugggagacaguguca
agcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggcgc
ucaaagguucccucagaaugguuggaaaucauucauagaguguaaaggca
uaagggagcuugacugcgagaccuacaagucgagcagggucgaaagacgg
acuuagugauccggugguuccgcauggaagggccaucgcucaacggauaa
aagcuaccccggggauaacaggcuuaucucccccaagaguucacaucgac
ggggagguuuggcaccucgaugucggcucaucgcauccuggggcuguagu
cggucccaaggguugggcuguucgcccauuaaagcgguacgcgagcuggg
uucagaacgucgugagacaguucggucccuauccgucgugggcguaggaa
auuugagaggagcuguccuuaguacgagaggaccgggauggacauaccuc
ugguguaccaguugucgugccaacggcauagcuggguagcuaugugugga
cgggauaagugcugaaagcaucuaagcaugaagccccccucaagaugaga
uuucccaacuugguuauaagaucccucaaagaugaugagguuaauagguu
cgagguggaagcauggugacauguggagcugacgaauacuaaucgaucga
agacuuaauc
Receptor-Ligand Complex Structure
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PDB5nrg Structural insights of lincosamides targeting the ribosome of Staphylococcus aureus.
Resolution3.442 Å
Binding residue
(original residue number in PDB)		L3 H4 L6 P8 E10 G11 S12 R13 K14 R16 N17 R18 G20 R21 G22 N27 G28 K29 T30 G32 R33 H35 K36 G37 R41 V46 R47 E51 G52 G53 Q54 L55 P56 L57 L95 L96 N114
Binding residue
(residue number reindexed from 1)		L2 H3 L5 P7 E9 G10 S11 R12 K13 R15 N16 R17 G19 R20 G21 N26 G27 K28 T29 G31 R32 H34 K35 G36 R40 V45 R46 E50 G51 G52 Q53 L54 P55 L56 L94 L95 N113
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015934 large ribosomal subunit
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5nrg, PDBe:5nrg, PDBj:5nrg
PDBsum5nrg
PubMed28973455
UniProtP0A0F8|RL15_STAA8 Large ribosomal subunit protein uL15 (Gene Name=rplO)

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