Structure of PDB 4wfb Chain G Binding Site BS01

Receptor Information

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

MRQTFMANESNIERKWYVIDAEGQTLGRLSSEVASILRGKNKVTYTPHVD
TGDYVIVINASKIEFTGNKETDKVYYRHSNHPGGIKSITAGELRRTNPER
LIENSIKGMLPSTRLGEKQGKKLFVYGGAEHPHAAQQPENYELRG

Ligand information

>4wfb Chain X (length=2707)

gauuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaau
gaaggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuu
gauccagagauuuccgaauggggaaacccagcaugaguuaugucauguua
ucgauauguauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguugua
ggacacucuaugaguuacaaaggacgacauuagacgaaucaucuggaaag
augaaucaaagaagguaauaauccuguagucgaaaauguugucucucuug
aguggauccugaguacgacggagcacgugaaauuccgucggaaucuggga
ggaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccagu
accgugagggaaaggugaaaagcaccccggaaggggagugaaauagaacc
ugaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcgu
gccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagca
guaaauguggagccguagcgaaagcgagucugaauagggcguuuaguauu
uggucguagacccgaaaccaggugaucuacccuuggucagguugaaguuc
aggcugaauggaggaccgaaccgacuuacguugaaaagugagcggaugaa
cugaggguagcggagaaauuccaaucgaaccuggagauagcugguucucu
ccgaaauagcuuuagggcuagccucaagugaugauuauuggagguagagc
acuguuuggacgaggggguuaccgaauucagacaaacuccgaaugccaau
aauuuaacuugggagucagaacaugggugauaagguccguguucgaaagg
gaaacagcccagaccaccagcuaaggucccaaaauauauguuaaguggaa
aaggauguggcguugcccagacaacuagcucacuagucggugacacugcg
ccgaaaauguaccggggcuaaacauauuaccgaagcuguggauuguccug
gacaaugguaggagagcguucuaagggcguugaagcaugaucguaaggac
auguggagcgcuuagaagugagaaugccggugugaguagcgaaagacggg
ugagaaucccguccaccgauugacuaagguuuccagaggaaggcucgucc
gcucuggguuagucggguccuaagcugaggccgacaggcguaggcgaugg
auaacagguugauauuccuguaccaccuauaaucguaucgauggggggac
gcaguaggauaggcgagcgugcgauuggaugcacgucuaagcaguaaggc
ugaguaaaauccgguacucgggcugagcugugaugggagaagaagucguu
gauuucacacugccgagaaaagccucuagauagaauaggugcccguaccg
caaaccgacacagguagucaagaugagaauucuaaggugagcgagcgaac
ucucguuaaggaacucggcaaaaugaccccguaacuucgggagaaggggu
gcucuuuaggguuaacgcccagaagagccgcagugaauaggcccaagcga
cuguuuaucaaaaacacaggucucugcuaaaccguaaggugauguauagg
ggcugacgccugcccgugcuggaagguuaagaggagugguuaggcgaagc
uacgaaucgaagccccaguaaacggcggccccuaagguagcgaaauuccu
ugucggguaaguuccgacccgcacgaaaggcguaacgauuugggcacugu
cucaacgagagacucggugaaaucauaguaccugugaagaugcagguuac
ccgcgacaggacggaaagaccccguggagcuuuacuguagccugauauug
aaauucggcuuucuaacccgcaccacuuaucguggugggagacaguguca
agcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggcgc
ucaaagguucccucagaaugguugaaaucauucauagaguguaaaggcau
aagggagcuugacugcgagaccuacaagucgagcagggucgaaagacgga
cuuagugauccggugguuccgcauggaagggccaucgcucaacggauaaa
agcuaccccggggauaacaggcuuaucucccccaagaguucacaucgacg
gggagguuuggcaccucgaugucggcucaucgcauccuggggcuguaguc
ggucccaaggguugggcuguucgcccauuaaagcgguacgcgagcugggu
ucagaacgucgugagacaguucggucccuauccgucgugggcguaggaaa
uuugagaggagcuguccuuaguacgagaggaccgggauggacauaccucu
gguguaccaguugucgugccaacggcauagcuggguagcuauguguggac
gggauaagugcugaaagcaucuaagcaugaagccccccucaagaugagau
uucccaacuuguuauaagaucccucaaagaugaugagguuaauagguucg
agguggaagcauggugacauguggagcugacgaauacuaaucgaucgaag
acuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4wfb Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.
• Resolution: 3.43 Å
• Binding residue (original residue number in PDB): M1 R2 T4 N8 W16 T25 G27 R28 S31 K40 H48 T66 G67 Y75 Y76 R77 H78 S79 H81 G83 K86 R100 E103 S105 G108 M109 P111 T113 R114 L115 K121 H133 A135 Q136 G145
• Binding residue (residue number reindexed from 1): M1 R2 T4 N8 W16 T25 G27 R28 S31 K40 H48 T66 G67 Y75 Y76 R77 H78 S79 H81 G83 K86 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:4wfb, PDBe:4wfb, PDBj:4wfb
• PDBsum: 4wfb
• PubMed: 26464510
• UniProt: Q2FW38|RL13_STAA8 Large ribosomal subunit protein uL13 (Gene Name=rplM)