Structure of PDB 4wfa Chain G Binding Site BS01

Receptor Information

>4wfa Chain G (length=145) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

MRQTFMANESNIERKWYVIDAEGQTLGRLSSEVASILRGKNKVTYTPHVD
TGDYVIVINASKIEFTGNKETDKVYYRHSNHPGGIKSITAGELRRTNPER
LIENSIKGMLPSTRLGEKQGKKLFVYGGAEHPHAAQQPENYELRG

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): M1 R2 T4 M6 N8 W16 L26 G27 R28 S31 R38 K40 P47 H48 Y54 T66 Y75 Y76 R77 H78 S79 H81 G83 R100 E103 S105 G108 M109 P111 T113 R114 L115 K121 H133 A135 Q136 G145
• Binding residue (residue number reindexed from 1): M1 R2 T4 M6 N8 W16 L26 G27 R28 S31 R38 K40 P47 H48 Y54 T66 Y75 Y76 R77 H78 S79 H81 G83 R100 E103 S105 G108 M109 P111 T113 R114 L115 K121 H133 A135 Q136 G145

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0017148 negative regulation of translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4wfa, PDBe:4wfa, PDBj:4wfa
• PDBsum: 4wfa
• PubMed: 26464510
• UniProt: Q2FW38|RL13_STAA8 Large ribosomal subunit protein uL13 (Gene Name=rplM)