Structure of PDB 8p2h Chain d Binding Site BS01

Receptor Information

>8p2h Chain d (length=204) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

QKINPIGLRVGIIRDWEAKWYAEKDFASLLHEDLKIRKFIDNELKEASVS
HVEIERAANRINIAIHTGKPGMVIGKGGSEIEKLRNKLNALTDKKVHINV
IEIKKVDLDARLVAENIARQLENRASFRRVQKQAITRAMKLGAKGIKTQV
SGRLGGADIARAEQYSEGTVPLHTLRADIDYAHAEADTTYGKLGVKVWIY
RGEV

Ligand information

>8p2h Chain a (length=1534)

auggagaguuugauccuggcucaggaugaacgcuggcggcgugccuaaua
caugcaagucgagcgaacggacgagaagcuugcuucucugauguuagcgg
cggacgggugaguaacacguggauaaccuaccuauaagacugggauaacu
ucgggaaaccggagcuaauaccggauaauauuuugaaccgcaugguucaa
aagugaaagacggucuugcugucacuuauagauggauccgcgcugcauua
gcuaguugguaagguaacggcuuaccaaggcaacgaugcauagccgaccu
gagagggugaucggccacacuggaacugagacacgguccagacuccuacg
ggaggcagcaguagggaaucuuccgcaaugggcgaaagccugacggagca
acgccgcgugagugaugaaggucuucggaucguaaaacucuguuauuagg
gaagaacauauguguaaguaacugugcacaucuugacgguaccuaaucag
aaagccacggcuaacuacgugccagcagccgcgguaauacguagguggca
agcguuauccggaauuauugggcguaaagcgcgcguaggcgguuuuuuaa
gucugaugugaaagcccacggcucaaccguggagggucauuggaaacugg
aaaacuugagugcagaagaggaaaguggaauuccauguguagcggugaaa
ugcgcagagauauggaggaacaccaguggcgaaggcgacuuucuggucug
uaacugacgcugaugugcgaaagcguggggaucaaacaggauuagauacc
cugguaguccacgccguaaacgaugagugcuaaguguuagggggccccuu
agugcugcagcuaacgcauuaagcacuccgccuggggaguacgaccgcaa
gguugaaacucaaaggaauugacggggacccgcacaagcgguggagcaug
ugguuuaauucgaagcaacgcgaagaaccuuaccaaaucuugacauccuu
ugacaacucuagagauagagccuuccggacaaagugacagguggugcaug
guugucgucagcucgugucgugagauguuggguuaagucccgcaacgagc
gcaacccuuaagcuuaguugccaucauuaaguugggcacucuaaguugac
ugccggugacaaaccggaggaagguggggaugacgucaaaucaucaugcc
ccuuaugauuugggcuacacacgugcuacaauggacaauacaaagggcag
cgaaaccgcgaggucaagcaaaucccauaaaguuguucucaguucggauu
guagucugcaacucgacuacaugaagcuggaaucgcuaguaaucguagau
cagcaugcuacggugaauacguucccgggucuuguacacaccgcccguca
caccacgagaguuuguaacacccgaagccgguggaguaaccuuuuaggag
cuagccgucgaaggugggacaaaugauuggggugaagucguaacaaggua
gccguaucggaaggugcggcuggaucaccuccuu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p2h Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric hybrid state
• Resolution: 2.49 Å
• Binding residue (original residue number in PDB): Q3 K4 I5 K26 R126 S153 G154 R155 D160 I161 A162 T171 P173 L174 H175 T176 L177 R178 H185 E187 T191 Y192 K194 G196 K198
• Binding residue (residue number reindexed from 1): Q1 K2 I3 K24 R124 S151 G152 R153 D158 I159 A160 T169 P171 L172 H173 T174 L175 R176 H183 E185 T189 Y190 K192 G194 K196

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8p2h, PDBe:8p2h, PDBj:8p2h
• PDBsum: 8p2h
• PubMed: 38902339
• UniProt: Q2FW12|RS3_STAA8 Small ribosomal subunit protein uS3 (Gene Name=rpsC)