Structure of PDB 5nd9 Chain n Binding Site BS01

Receptor Information
>5nd9 Chain n (length=60) 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]
AKTSMVAKQQKKQKYAVREYTRCERCGRPHSVYRKFKLCRICFRELAYKG
QIPGVRKASW
Ligand information
>5nd9 Chain a (length=1541) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ggagaguuugauccuggcucaggaugaacgcuggcggcgugccuaauaca
ugcaagucgagcgaacggacgagaagcuugcuucucugauguuagcggcg
gacgggugaguaacacguggauaaccuaccuauaagacugggauaacuuc
gggaaaccguagcuaauaccggauaauauuuugaaccgcaugguucaaaa
gugaaagacggucuugcugucacuuauagauggauccgcgcugcauuagc
uaguugguaagguaacggcuuaccaaggcaacgaugcauagccgaccuga
gagggugaucggccacacuggaacugagacacgguccagacuccuacggg
aggcagcaguagggaaucuuccgcaaugggcgaaagccugacggagcaac
gccgcgugagugaugaaggucuucggaucguaaaacucuguuauuaggga
agaacauauguguaaguaacugugcacaucuugacgguaccuaaucagaa
agccacggcuaacuacgugccagcagccgcgguaauacguagguggcaag
cguuauccggaauuauugggcguaaagcgcgcguaggcgguuuuuuaagu
cugaugugaaagcccacggcucaaccguggagggucauuggaaacuggaa
aacuugagugcagaagaggaaaguggaauuccauguguagcggugaaaug
cgcagagauauggaggaacaccaguggcgaaggcgacuuucuggucugua
acugacgcugaugugcgaaagcguggggaucaaacaggauuagauacccu
gguaguccacgccguaaacgaugagugcuaaguguuaggggguuucccgc
cccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacgac
cgcaagguugaaacucaaaggaauugacggggacccgcacaagcggugga
gcaugugguuuaauucgaagcaacgcgaagaaccuuaccaaaucuugaca
uccuuugacaacucuagagauagagccuuccccuucgggggacaaaguga
cagguggugcaugguugucgucagcucgugucgugagauguuggguuaag
ucccgcaacgagcgcaacccuuaagcuuaguugccaucauuaaguugggc
acucuaaguugacugccggugacaaaccggaggaagguggggaugacguc
aaaucaucaugccccuuaugauuugggcuacacacgugcuacaauggaca
auacaaagggcagcgaaaccgcgaggucaagcaaaucccauaaaguuguu
cucaguucggauuguagucugcaacucgacuacaugaagcuggaaucgcu
aguaaucguagaucagcaugcuacggugaauacguucccgggucuuguac
acaccgcccgucacaccacgagaguuuguaacacccgaagccgguggagu
aaccuuuuaggagcuagccgucgaaggugggacaaaugauuggggugaag
ucguaacaagguagccguaucggaaggugcggcuggaucac
...<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<.
<<<..<<<..<<.<<<<...<<<<........>>>>...>>>>.>>>>>.
.....<<........<<<<<<<..<<...<<<<<<<.<<<<.....<<.<
<<....>>>.>>......>>>>......<<<<<<<<<<..>>>>>>>>>>
......<<<<<<...>>>>>>.>>>>>>>..>>>>>>>>>.<<<....<<
<..<<<<<<<<.......>>>>>>>>>>>......>>>..<<<<<<<<..
..>>>>...>>>>.>>.<<<<<.<.........>>>>>>.<<<<....>>
>>...>>>>>>.......<.<<<....<<<<....>>>>..>>>>.>>.>
>>>>>..<<<<......<<<<....>>>>.....>>>>...<<<<<<<..
............<.<.......>>...............>>>>>>...>.
.<<<<<(((...<<<<<.....<<.)))>>.......>>>>>>>>>>..>
>>>>>>>>..........<<<((.....<<<<<..<<<.<<<<<<<.<<<
<<<<<<.......<<<<<<.....>>>>>>.....>>>>>>>..>>>>>>
>>>...<<<<<<<<...<<<<<<<....<<<<<<<<...<<<......>>
>......>>>>>>>.>..........<<....>>.>>>>>>>..>>>>>.
>>>...>>>..>>>>>....<<<<<<<...<...<<<<.<.....>.>>>
>...>>>>>>>>..........<<<<<<..<<<<<<<<<<<<<.....>>
>>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<......<<<
<....>>>>....>>>..)))).].<<<<.<<<<<<<.<<.<<<<<<..<
<<<<<<<<.......<<........>>..........<<<<<<<......
<<<<.......<<<<<....>>>>>.....<<<....>>>.....>>.>>
.<<<.<<<..<<<<<<.......<<<<<<<<<....>>>..<<<<.....
.>>>>..>>>>>>.....<<<<.<<<<<<...<<...<<......>>.>>
....>>>>>>.....<<<<<.....>>>>>........>>>>........
.>>>...>>>>>>>>>...>>>>>>>....>.>>>>>>>>.....<<<<<
<<.....<<<..<<...<<<....>>>...>>....>>>.....>>>>>>
>.........<.<<<<<<<........>>>>>>>>.........>>>>>>
....<<<<<<<.........>>>>>>>......>>...>>>>>>>>>>.>
.....<..<<...<<<<.<<<..<<<<<<..<<<<....<.<<<<..<<<
..<<<...>>>.>>>.>>>>.>...>>>>..>>>>>>..>>>.>>>>...
.>>...>.....<<<<<<<<<....>>>>>>>>>.......
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5nd9 Structures and dynamics of hibernating ribosomes from Staphylococcus aureus mediated by intermolecular interactions of HPF.
Resolution3.7 Å
Binding residue
(original residue number in PDB)		A2 K3 T4 S5 M6 K9 Y16 V18 R19 E20 C27 R29 H31 S32 Y34 R35 K36 R41 I42 R45 K58 A59 S60 W61
Binding residue
(residue number reindexed from 1)		A1 K2 T3 S4 M5 K8 Y15 V17 R18 E19 C26 R28 H30 S31 Y33 R34 K35 R40 I41 R44 K57 A58 S59 W60
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0008270 zinc ion binding
GO:0019843 rRNA binding
GO:0046872 metal ion binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5nd9, PDBe:5nd9, PDBj:5nd9
PDBsum5nd9
PubMed28645916
UniProtQ2FW19|RS14Z_STAA8 Small ribosomal subunit protein uS14B (Gene Name=rpsZ)

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