Structure of PDB 6yef Chain p Binding Site BS01

Receptor Information
>6yef Chain p (length=90) 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]
AVKIRLTRLGSKRNPFYRIVVADARSPRDGRIIEQIGTYNPTSANAPEIK
VDEALALKWLNDGAKPTDTVHNILSKEGIMKKFDEQKKAK
Ligand information
>6yef Chain a (length=1545) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguuugauccuggcucaggaugaacgcuggcggcgugccuaauac
augcaagucgagcgaacggacgagaagcuugcuucucugauguuagcggc
ggacgggugaguaacacguggauaaccuaccuauaagacugggauaacuu
cgggaaaccggagcuaauaccggauaauauuuugaaccgcaugguucaaa
agugaaagacggucuugcugucacuuauagauggauccgcgcugcauuag
cuaguugguaagguaacggcuuaccaaggcaacgaugcauagccgaccug
agagggugaucggccacacuggaacugagacacgguccagacuccuacgg
gaggcagcaguagggaaucuuccgcaaugggcgaaagccugacggagcaa
cgccgcgugagugaugaaggucuucggaucguaaaacucuguuauuaggg
aagaacauauguguaaguaacugugcacaucuugacgguaccuaaucaga
aagccacggcuaacuacgugccagcagccgcgguaauacguagguggcaa
gcguuauccggaauuauugggcguaaagcgcgcguaggcgguuuuuuaag
ucugaugugaaagcccacggcucaaccguggagggucauuggaaacugga
aaacuugagugcagaagaggaaaguggaauuccauguguagcggugaaau
gcgcagagauauggaggaacaccaguggcgaaggcgacuuucuggucugu
aacugacgcugaugugcgaaagcguggggaucaaacaggauuagauaccc
ugguaguccacgccguaaacgaugagugcuaaguguuaggggguuuccgc
cccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacgac
cgcaagguugaaacucaaaggaauugacggggacccgcacaagcggugga
gcaugugguuuaauucgaagcaacgcgaagaaccuuaccaaaucuugaca
uccuuugacaacucuagagauagagccuuccccuucgggggacaaaguga
cagguggugcaugguugucgucagcucgugucgugagauguuggguuaag
ucccgcaacgagcgcaacccuuaagcuuaguugccaucauuaaguugggc
acucuaaguugacugccggugacaaaccggaggaagguggggaugacguc
aaaucaucaugccccuuaugauuugggcuacacacgugcuacaauggaca
auacaaagggcagcgaaaccgcgaggucaagcaaaucccauaaaguuguu
cucaguucggauuguagucugcaacucgacuacaugaagcuggaaucgcu
aguaaucguagaucagcaugcuacggugaauacguucccgggucuuguac
acaccgcccgucacaccacgagaguuuguaacacccgaagccgguggagu
aaccuuuuaggagcuagccgucgaaggugggacaaaugauuggggugaag
ucguaacaagguagccguaucggaaggugcggcuggaucaccucc
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<.<<<<....<<..........>>....>>>>.>>>>>
......<<........<<<<<<<..<<...<<<<<<<.<<<<.....<<<
<<<....>>>>>>......>>>>......<<<<<<<<<....>>>>>>>>
>......<<<<<<...>>>>>>.>>>>>>>..>>>>>>>>>.<<<....<
<<..<<<<<<<<.......>>>>>>>>>>>......>>>..<<<<<<<<.
...>>>>...>>>>.>>.<<<<<.<.........>>>>>>.<<<<<..>>
>>>...>>>>>>.........<<<....<<<<....>>>>..>>>..>>.
>>>>>>..<<<<.......<<<....>>>......>>>>....<<<<<<.
........................................>>>>>>....
..<<<<<(((...<<<<<.....<<.)))>>.......>>>>>>>>>>..
>>>>>>>>>..........<<<((.....<<<<<..<<<.<<<<<<<.<<
<<<<<<<.......<<<<<<.....>>>>>>.....>>>>>>>..>>>>>
>>>>...<<<<<<<<...<<<<<<<....<<<<<<<<.<.<<<......>
>>.....>>>>>>>>>...........<<....>>.>>>>>>>..>>>>>
.>>>...>>>..>>>>>....<<<<<<<...<...<<<<.<.....>.>>
>>...>>>>>>>>..........<<<<<<..<<<<<<<<<<<<<....>>
>>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<......<<<
<....>>>>....>>>..)))).]<<<<<.<<<<<<<.<<.<<<<<<..<
<<<<<<<<<......<<........>>..........<<<<<<<......
<.<<<......<<<<<....>>>>>.....<<<<..>>>>...>>.>.>.
.<<<.<<<..<<<<<<.......<<<<<<<<<....>>>..<<<<.....
.>>>>..>>>>>>.....<<<<.<<<<<<<..<<..<<<......>>>>>
...>>>>>>>.....<<<<<.....>>>>>........>>>>........
.>>>...>>>>>>>>>...>>>>>>>...>>.>>>>>>>>.....<<<<<
<<.....<<<..<<...<<<....>>>...>>....>>>.....>>>>>>
>......<....<<<<<<<........>>>>>>>....>.....>>>>>>
....<<<<<<<.........>>>>>>>......>>...>>>>>>>>>>.>
>.......<<.<.<<<<.<<<..<<<<<<..<<<<....<.<<<<..<<<
..<<<...>>>.>>>.>>>>.>...>>>>..>>>>>>..>>>.>>>>..>
.>>.........<<<<<<<<<....>>>>>>>>>...........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB6yef Cryo-EM structure of the ribosome functional complex of the human pathogen Staphylococcus aureus at 3.2 angstrom resolution.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		A2 K4 R6 L7 R9 L10 K13 R14 F17 Y18 R19 D24 A25 R26 P28 R29 G31 R32 I34 P42 D63 G64 T70 N73 S76 M81 K89
Binding residue
(residue number reindexed from 1)		A1 K3 R5 L6 R8 L9 K12 R13 F16 Y17 R18 D23 A24 R25 P27 R28 G30 R31 I33 P41 D62 G63 T69 N72 S75 M80 K88
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6yef, PDBe:6yef, PDBj:6yef
PDBsum6yef
PubMed32852796
UniProtQ2FZ45|RS16_STAA8 Small ribosomal subunit protein bS16 (Gene Name=rpsP)

[Back to BioLiP]