Structure of PDB 8p2f Chain 1 Binding Site BS01

Receptor Information

>8p2f Chain 1 (length=61) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

GKQCFVTGRKASTGNRRSHALNSTKRRWNANLQKVRILVDGKPKKVWVSA
RALKSGKVTRV

Ligand information

>8p2f Chain A (length=2844)

uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccgauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauaugugaauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguugua
ggacacucuauacggaguuacaaaggacgacauuagacgaaucaucugga
aagaugaaucaaagaagguaauaauccuguagucgaaaauguugucucuc
uugaguggauccugaguacgacggagcacgugaaauuccgucggaaucug
ggaggaccaucuccuaaggcuaaauacucucuagugaccgauagugaacc
aguaccgugagggaaaggugaaaagcaccccggaaggggagugaaauaga
accugaaaccgugugcuuacaaguagucagagcccguuaaugggugaugg
cgugccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaa
gcaguaaauguggagccguagcgaaagcgagucugaauagggcguuuagu
auuuggucguagacccgaaaccaggugaucuacccuuggucagguugaag
uucagguaacacugaauggaggaccgaaccgacuuacguugaaaagugag
cggaugaacugaggguagcggagaaauuccaaucgaaccuggagauagcu
gguucucuccgaaauagcuuuagggcuagccucaagugaugauuauugga
gguagagcacuguuuggacgaggggccguuaccgaauucagacaaacucc
gaaugccaauuaauuuaacuugggagucagaacaugggugauaagguccg
uguucgaaagggaaacagcccagaccaccagcuaaggucccaaaauauau
guuaaguggaaaaggauguggcguugcccagacaacuaggauguuggcuu
agaagcagccaucauuuaaagagugcguaauagcucacuagucgagugac
acugcgccgaaaauguaccggggcuaaacauauuaccgaagcuguggauu
guccuuuggacaaugguaggagagcguucuaagggcguugaagcaugauc
guaaggacauguggagcgcuuagaagugagaaugccggugugaguagcga
aagacgggugagaaucccguccaccgauugacuaagguuuccagaggaag
gcucguccgcucuggguuagucggguccuaagcugaggccgacaggcgua
ggcgauggauaacagguugauauuccuguaccaccuauaaucguuuuaau
cgauggggggacgcaguaggauaggcgaagcgugcgauuggauugcacgu
cuaagcaguaaggcugaguauuaggcaaauccgguacucguuaaggcuga
gcugugauggggagaagacauugugucuucgagucguugauuucacacug
ccgagaaaagccucuagauagaaaauaggugcccguaccgcaaaccgaca
cagguagucaagaugagaauucuaaggugagcgagcgaacucucguuaag
gaacucggcaaaaugaccccguaacuucgggagaaggggugcucuuuagg
guuaacgcccagaagagccgcagugaauaggcccaagcgacuguuuauca
aaaacacaggucucugcuaaaccguaaggugauguauaggggcugacgcc
ugcccggugcuggaagguuaagaggagugguuagcuucugcgaagcuacg
aaucgaagccccaguaaacggcggccguaacuauaacgguccuaagguag
cgaaauuccuugucggguaaguuccgacccgcacgaaaggcguaacgauu
ugggcacugucucaacgagagacucggugaaaucauaguaccugugaaga
ugcagguuacccgcgacaggacggaaagaccccguggagcuuuacuguag
ccugauauugaaauucggcacagcuugcccuagcuguguuggcuuucuaa
cccgcaccacuuaucguggugggagacagugucaggcgggcaguuugacu
ggggcggucgccuccuaaaagguaacggaggcgcucaaagguucccucag
aaugguuggaaaucauucauagaguguaaaggcauaagggagcuugacug
cgagaccuacaagucgagcagggucgaaagacggacuuagugauccggug
guuccgcauggaagggccaucgcucaacggauaaaagcuaccccggggau
aacaggcuuaucucccccaagaguucacaucgacggggagguuuggcacc
ucgaugucggcucaucgcauccuggggcuguagucggucccaaggguugg
gcuguucgcccauuaaagcgguacgcgagcuggguucagaacgucgugag
acaguucggucccuauccgucgugggcguaggaaauuugagaggagcugu
ccuuaguacgagaggaccgggauggacauaccucugguguaccaguuguc
gugccaacggcauagcuggguagcuauguguggacgggauaagugcugaa
agcaucuaagcaugaagccccccucaagaugagauuucccaacuucgguu
auaagaucccucaaagaugaugagguuaauagguucgagguggaagcaug
gugacauguggagcugacgaauacuaaucgaucgaagacuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p2f Cryo-EM structures of Staphylococcus aureus 70S ribosomes in complex with elongation factor G and fusidic acid
• Resolution: 2.44 Å
• Binding residue (original residue number in PDB): G2 K3 R10 S13 T14 G15 N16 R18 S19 H20 A21 L22 N23 K26 R27 R28 W29 N30 A31 N32 Q34 K43 A51 R52 K55 S56 K58 R61
• Binding residue (residue number reindexed from 1): G1 K2 R9 S12 T13 G14 N15 R17 S18 H19 A20 L21 N22 K25 R26 R27 W28 N29 A30 N31 Q33 K42 A50 R51 K54 S55 K57 R60

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8p2f, PDBe:8p2f, PDBj:8p2f
• PDBsum: 8p2f
• PubMed: 38902339
• UniProt: Q2FZ60|RL28_STAA8 Large ribosomal subunit protein bL28 (Gene Name=rpmB)