Structure of PDB 4wfa Chain O Binding Site BS01

Receptor Information

>4wfa Chain O (length=101) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

MFAIIETGGKQIKVEEGQEIFVEKLDVNEGDTFTFDKVLFVGGDSVKVGA
PTVEGATVTATVNKQGRGKKITVFTYKRRKNSKRKKGHRQPYTKLTIDKI
N

Ligand information

>4wfa Chain X (length=2711)

gauuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaau
gaaggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuu
gauccagagauuuccgaauggggaaacccagcaugaguuaugucauguua
ucgauauguauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguugag
gacacucuaugaguuacaaaggacgacauuagacgaaucaucuggaaaga
ugaaucaaagaagguaauaauccuguagucgaaaauguugucucucuuga
guggauccugaguacgacggagcacgugaaauuccgucggaaucugggag
gaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccagua
ccgugagggaaaggugaaaagcaccccggaaggggagugaaauagaaccu
gaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcgug
ccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagcag
uaaauguggagccguagcgaaagcgagucugaauagggcguuuaguauuu
ggucguagacccgaaaccaggugaucuacccuuggucagguugaaguuca
ggcugaauggaggaccgaaccgacuuacguugaaaagugagcggaugaac
ugaggguagcggagaaauuccaaucgaaccuggagauagcugguucucuc
cgaaauagcuuuagggcuagccucaagugaugauuauuggagguagagca
cuguuuggacgaggggguuaccgaauucagacaaacuccgaaugccaauu
aauuuaacuugggagucagaacaugggugauaagguccguguucgaaagg
gaaacagcccagaccaccagcuaaggucccaaaauauauguuaaguggaa
aaggauguggcguugcccagacaacuagcucacuagucgagugacacugc
gccgaaaauguaccggggcuaaacauauuaccgaagcuguggauuguccu
uggacaaugguaggagagcguucuaagggcguugaagcaugaucguaagg
acauguggagcgcuuagaagugagaaugccggugugaguagcgaaagacg
ggugagaaucccguccaccgauugacuaagguuuccagaggaaggcucgu
ccgcucuggguuagucggguccuaagcugaggccgacaggcguaggcgau
ggauaacagguugauauuccuguaccaccuauaaucguaucgaugggggg
acgcaguaggauaggcgagcgugcgauuggaugcacgucuaagcaguagg
cugaguaaaauccgguacucggcugagcugugauggggagaagagagucg
uugauuucacacugccgagaaaagccucuagauagaauaggugcccguac
cgcaaaccgacacagguagucaagaugagaauucuaaggugagcgagcga
acucucguuaaggaacucggcaaaaugaccccguaacuucgggagaaggg
gugcucuuuaggguuaacgcccagaagagccgcagugaauaggcccaagc
gacuguuuaucaaaaacacaggucucugcuaaaccguaaggugauguaua
ggggcugacgccugcccgugcuggagguuaagaggagugguuagcugcga
agcuacgaaucgaagccccaguaaacggcggccuaagguagcgaaauucc
uugucggguaaguuccgacccgcacgaaaggcguaacgauuugggcacug
ucucaacgagagacucggugaaaucauaguaccugugaagaugcagguua
cccgcgacaggacggaaagaccccguggagcuuuacuguagccugauauu
gaaauucuggcuuucuaacccgcaccacuuaucguggugggagacagugu
caagcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggc
gcucaaagguucccucagaaugguuggaaaucauucauagaguguaaagg
cauaagggagcuugacugcgagaccuacaagucgagcagggucgaaagac
ggacuuagugauccggugguuccgcauggaagggccaucgcucaacggau
aaaagcuaccccggggauaacaggcuuaucucccccaagaguucacaucg
acggggagguuuggcaccucgaugucggcucaucgcauccuggggcugua
gucggucccaaggguugggcuguucgcccauuaaagcgguacgcgagcug
gguucagaacgucgugagacaguucggucccuauccgucgugggcguagg
aaauuugagaggagcuguccuuaguacgagaggaccgggauggacauacc
ucugguguaccaguugucgugccaacggcauagcuggguagcuaugugug
gacgggauaagugcugaaagcaucuaagcaugaagccccccucaagauga
gauuucccaacuugguuauaagaucccucaaagaugaugagguuaauagg
uucgagguggaagcauggugacauguggagcugacgaauacuaaucgauc
gaagacuuaau

..<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<.((..((.>>>.....<<<<<<<..<<<))..)).>>>...
..>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.
<<<<<<<<<.......>>>>>>>.>>.>>....<<<<<......<<....
>>.......>>>>.>.........<<....>>..<<<<<......<<...
..>>.....>>>>>..(((....<<<<<<<<....>>>>>>>>.....<<
<<<<<<<...<..........<<<<<<<<<.<<<...<<<<<......>>
>>>((......<<<.....))>>>...>>>...>>>>>>>>.>...>.>>
>>>..>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<
..<<<<>>>>>..)))......]].>>>>>>>.]]...............
<<....>>....]].........<<<<....>>>>...............
...>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>>>...
<.<........>.>.<<<<<<....<<<<<<<.<<<<<..<<<...<<..
.....>>...>>>...<<....>>..<<<<.....>>>>.....>>>>>.
>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<....<<<<.
....>>>>.....>>>...<<<.<<<<<........>>>>>>>>....>>
>>>>>>>...<<<.....>>>......>>>>>>......>.>>..<<<<<
<....<<<<<....>>>>><<<<<<<<<...<<<<<<<<<.....<<<..
.<<<<<<<<...<<......>>...>>>>>>>>..>>.>.....>>>>.>
>>>>..>>>>>>>.>>..<<<<<<<<<<......>>>>>>>>>>....<<
<......>>>...<<<<.<<<...<<<(((.....<<<<<<.........
..<<..<<<<.<<<<........<<<<......>>>>....>>>>.>>>>
.>>...........))).....>>>>>>.>>>...>>>>>>><<<<<<<.
.>>>>>>>....>>>>>>..<<<<<<<.<<......<<<<<.<<....>>
.>>>>>...>>.>>>>>>>........>>>>>><......<<....<<<<
<<.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....
>>.>>>>>>....((<<<<.<<...<<<...<<<....>>>...>>>...
>>...<<<<<........>>>>>))<<<<<<<......<<<...<<<<..
..<<<<...<<...<...<.<<<...{.{..>>>.>.<....<<<<<.<<
<.<<.<..........>.>>.>>>..>>>>>.....>.............
.>....>>...>>>>.........>>>.>.>>>...>>>>>>>>>>>..>
>.....<<......>>>>>>>.<<<<....>.>>>..>>>>..<<<<...
.<<<<<<<<.<<...............<<<<<.....<..>......>>>
>><<<<<<<.<<<<....>>>>.>>>>>>>............<<<<<<<<
<..<<<.........>>>..<<<<<<<.....<<<....>>>.......>
>>>>>>.<<<<<..<<.<<<<<<<.<<<...<<...<<<<<..<<.>>..
.>>>>>...>>...>>>>>>>>..>>>>............<.........
..<<<<<<.....>>>>>>.....>....>>>>>..>>.>>>>>>>....
.>>.>>>>>>>>.>>>>>>.....>.....<<<<<........>>>>>..
<<<<<<<<.(((.[[......<<<<.[[<<<<..<<<<..<<.<<<<<<.
<<<<.......>>>>....<<.<<<<<<.....>>>>>>>>.....>>>>
>>.>>...>>>>..<<<<.....>>>><<<<<<...........>>>>>>
..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>
>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<<....>>>
.>>)))]......<<<<<<<.((..>>>>..))>>>>>>>..........
...>>>>..]]>>>>.......<<<<.<.<<<<<<...<<.......>>.
..>>>>>>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<...
...>>>>>>>..>>.<<<<<.....>>>>>.....>>>>>..>...>>>.
>>....<<<<<<<....>>>.>>>>....]]..)))>>>>>>>>....<<
<<<<<...<<<<..<<<<<<<...............>>>>>>>.<<<<<.
..<<<<...<<<<<<<<<<<.}.}>>>>>>..>>>>>...>>>>.>>>>>
...<<<....<<<<<...........>>>>>....>>>.>>>>.......
>>>>>>>.<<<<.>>>>....<<<<<<<<<.......>>>>>....<<<<
<<<<.<<<....<<<<<....>>>>>...>>>..>>>>>.>>>...>>>>
....>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4wfa Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.
• Resolution: 3.392 Å
• Binding residue (original residue number in PDB): G8 G9 K10 F21 E23 K24 K64 R67 K70 I71 V73 Y76 K77 R78 R79 N81 K83 R84 K85 K86 G87 H88 R89 Q90 Y92
• Binding residue (residue number reindexed from 1): G8 G9 K10 F21 E23 K24 K64 R67 K70 I71 V73 Y76 K77 R78 R79 N81 K83 R84 K85 K86 G87 H88 R89 Q90 Y92

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4wfa, PDBe:4wfa, PDBj:4wfa
• PDBsum: 4wfa
• PubMed: 26464510
• UniProt: Q2FXS8|RL21_STAA8 Large ribosomal subunit protein bL21 (Gene Name=rplU)