Structure of PDB 6sj6 Chain T Binding Site BS01

Receptor Information

>6sj6 Chain T (length=116) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

PRVKGGTVTRARRKKTIKLAKGYFGSKHTLYKVAKQQVMKSGQYAFRDRR
QRKRDFRKLWITRINAAARQHEMSYSRLMNGLKKAGIDINRKMLSEIAIS
DEKAFAQLVTKAKDAL

Ligand information

>6sj6 Chain A (length=2585)

uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccgauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauaugugaauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaucgauucccuuaguagcggcga
gcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguuguagg
acacucuauacggaguuacaaaggacgacauuagacgaaucaucuggaaa
gaugaaucaaagaagguaauaauccuguagucgaaaauguugucucucuu
gaguggauccugaguacgacggagcacgugaaauuccgucggaaucuggg
aggaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccag
uaccgugagggaaaggugaaaagcaccccggaaggggagugaaauagaac
cugaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcg
ugccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagc
aguaaauguggagccguagcgaaagcgagucuguagggcguuuaguauuu
ggucguagacccgaaaccaggugaucuacccuuggucagguugaaguuca
gcugaauggaggaccgaaccgacuuacguugaaaagugagcggaugaacu
gaggguagcggagaaauuccaaucgaaccuggagauagcugguucucucc
gaaauagcuuuagggcuagccucaagugaugauuauuggagguagagcac
uguuuggacgaggggccgguuaccgaauucagacaaacuccgaaugccaa
uuaauuuaacuugggagucagaacaugggugauaagguccguguucgaaa
gggaaacagcccagaccaccagcuaaggucccaaaauauauguuaagugg
aaaaggauguggcguugccgugacacugcgccgaaaauguaccggggcua
aacauauuaccgaagcuguggauuguccuuuggacaaugguaggagagcg
uucuaagggcguugaagcaugaucguaaggacauguggagcgcuuagaag
ugagaaugccggugugaguagcgaaagacgggugagaaucccguccaccg
auugacuaagguuuccagaggaaggcucguccgcucuggguuagucgggu
ccuaagcugaggccgacaggcguaggcgauggauaacagguugauauucc
uguaccaccuauaaucguuuuaaucgauggggggacgcaguaggauaggc
gaagcgugcgauuggauucguugauuucacacugccgagaaaagccucua
gauagaaaauaggugcccguaccgcaaaccgacacagguagucaagauga
gaauucuaaggugagcgagcgaacucucguuaaggaacucggcaaaauga
ccccguaacuucgggagaaggggugcucuuuaggguuaacgcccagaaga
gccgcagugaauaggcccaagcgacuguuuaucaaaaacacaggucucug
cuaaaccguaaggugauguauaggggcugacgccugcccggugaguaaac
ggcgaagguagcgaaauuccuugucggguaaguuccgacccgcacgaaag
gcguaacgauuugggcacugucucaacgagagacucggugaaaucauagu
accugugaagaugcagguuacccgcgacaggacggaaagaccccguggag
cuuuacuguagccugauauugaaauucggcacacuguguuggcuuucuaa
cccgcaccacucguggugggagacagugucaggcgggcaguuugacuggg
gcggucgccuccuaaaagguaacggaggcgcucaaagguucccucagaau
gguuggaaaucauucauagaguguaaaggcauaagggagcuugacugcga
gaccuacaagucgagcagggucgaaagacggacuuagugauccggugguu
ccgcauggaagggccaucgcucaacggauaaaagcuaccccggggauaac
aggcuuaucucccccaagaguucacaucgacggggagguuuggcaccucg
augucggcucaucgcauccuggggcuguagucggucccaaggguugggcu
guucgcccauuaaagcgguacgcgagcuggguucagaacgucgugagaca
guucggucccuauccgucgugggcguaggaaauuugagaggagcuguccu
uaguacgagaggaccgggauggacauaccucugguguaccaguugucgug
ccaacggcauagcuggguagcuauguguggacgggauaagugcugaaagc
aucuaagcaugaagccccccucaagaugagauuucccaauuauaagaucc
cucaaagaugaugagguuaauagguucgagguggaagcauggugacaugu
ggagcugacgaauacuaaucgaucgaagacuuaau

<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<.....
.<<<.<<.((..((.>>......<<<<<<<..<<<))..)).>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<.<<<.........>>>.>>>.>.>>>....<<<<<......<.....
.>.......>>>>.>.........<<..>>...<<<<......<<.....
>>.....>>>>...(((....<<.<<<<<....>>>>>.>>......<<<
<...<..................<<<<<<<<..<<<...<<<<<......
>>>>><<......((......>>.))...>>>....>>>>>>>>......
>......>>>>.....<<<<<<<<.........>>>>>>>>......<<<
<<..<<<<>>>>>..)))......]].>>>>>>>.]].............
..<<....>>....]].........<<<......>>>.............
.....>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>>>.
..<............>.<<<<<<....<<<<<<<.<.<<...<<<...<<
<.....>>>...>>>...<......>....<<...>.>.......>>>..
>>>>>>>..<<....<<<<<<<.....<<<<<<<<<..<<<....<<<<<
..>>>>>.....>>>...<<<.<<<<<........>>>>>>>>....>>>
>>>>>>...<<<.....>>>......>>>>>>...>....>>..<<<<<<
....<<<<<....>>>>><<<<<<<<<...<<<<<<<<<...........
.<<<<<<<...................>>>>>>>............>>>>
.>>>>>..>>>>>>>.>>..<<<<<<<<<<......>>>>>>>>>>....
<<<......>>>...<<<<.<<<...<<<<<<.....(((.((.......
....<<...<<<.<.<.....>.>.>>>..>>...........>>>....
.)).))).>>>...>>>>>>>.<<<<<<...>>>>>>.....>>>>>><.
<<<<<<<.........<<<<<.<......>.>>>>>......>>>>>>>.
.>.....>>>>>><......<.....<<<<<.........>>>>><<<<.
...<<<<<.<<...<<<<<<...<<.....>>.>>>>>>.....(<<<<.
<.<<.<<<...<<<....>>>...>>>..>>>...<<<<<........>>
>>>).<<<<<.............<<...<<<<....<.....<<<.....
..........................>>.>.....>........>>>.>.
>>........>>>>>>>>>..>>.....<<......>>>>>>>.<<<...
....>>>..>>>>..<<<<....<<<<<<<<..<................
<<<<....<....>.....>>>>.<<<<<<<.<<........>>.>>>>>
>>............<<<<<<<<<..<<<.........>>>..<<<<<<<.
....<<......>>.......>>>>>>>..<<<<.<<<............
>>>.....................<<<.......>>>............>
>>>...>>.>>>>>>>.....>..>>>>>>>>.>>>>.>.....>.....
<<<<<........>>>>>..<<<<<<<<.(((.[[......<<<<.[[<<
<<..<<<<..<<<<<<<<<..<<<.<.<<<.......>>>>..>>>....
.<<.<<<<<....>>>>>>>.....>>>>>>>>>...>>>>..<<<<...
..>>>><<<.<<...........>>.>>>..<<...<<<<<<<....<<.
............>>......<<.[.(((>>....>>>>>>>...<<<<..
<<<......>>>..>>>>.<<<....>>>.>>)))]......<<<<<<<.
((..>>>>..))>>>>>>>.............>>>>..]]>>>>......
.<<<<...<<<<<<...<<.......>>...>>>>>>....>>>.>....
...<.<<<.<.<<<...<<<<<<<<<......>>>>>>>..>>.<<<<<.
....>>>>>......>>>...>...>>>..>....<<<<<<<....>>>.
>>>>....]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<<<<<
.....<....>....>>>>>>>.<<<<<...<<.<...<<<<<<<<<...
.....>>>>..>>>>>...>.>>.>>>>>...<<<.<..<<<<.......
......>>>>...>>>>.>>>>.......>>>>>>>.........<<<.<
<<<.........>>>>....<<<<<<<<.<<<.....<<<<....>>>>.
...>>>..>>>>>.>>>....>>>....>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6sj6 Mechanism of ribosome shutdown by RsfS in Staphylococcus aureus revealed by integrative structural biology approach.
• Resolution: 3.23 Å
• Binding residue (original residue number in PDB): P2 R3 T8 R13 R14 K15 K19 G23 Y24 F25 G26 H29 K33 Q37 Q38 Y45 R48 D49 R50 R51 R53 R55 R58 K59 N66 K93
• Binding residue (residue number reindexed from 1): P1 R2 T7 R12 R13 K14 K18 G22 Y23 F24 G25 H28 K32 Q36 Q37 Y44 R47 D48 R49 R50 R52 R54 R57 K58 N65 K92

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6sj6, PDBe:6sj6, PDBj:6sj6
• PDBsum: 6sj6
• PubMed: 32245971
• UniProt: Q2FXQ1|RL20_STAA8 Large ribosomal subunit protein bL20 (Gene Name=rplT)