Structure of PDB 8p16 Chain n Binding Site BS01

Receptor Information

>8p16 Chain n (length=127) Species: 562 (Escherichia coli)

NQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMVVRQPLE
LVDMVEKLDLYITVKGGGISGQAGAIRHGITRALMEYDESLRSELRKAGF
VTRDARQVERKKVGLRKARRRPQFSKR

Ligand information

>8p16 Chain 2 (length=1536)

aaauugaagaguuugaucauggcucagauugaacgcuggcggcaggccua
acacaugcaagucgaacgguaacaggaagaauucuuugcugacgaguggc
ggacgggugaguaaugucugggaaacugccugauggagggggauaacuac
uggaaacgguagcuaauaccgcauaacgucgcaagaccaaagagggggac
cuucgggccucuugccaucggaugugcccagaugggauuagcuaguaggu
gggguaacggcucaccuaggcgacgaucccuagcuggucugagaggauga
ccagccacacuggaacugagacacgguccagacuccuacgggaggcagca
guggggaauauugcacaaugggcgcaagccugaugcagccaugccgcgug
uaugaagaaggccuucggguuguaaaguacuuucagcggggaggaaggga
guaaaguuaauaccuuugcucauugacguuacccgcagaagaagcaccgg
cuaacuccgugccagcagccgcgguaauacggagggugcaagcguuaauc
ggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucagaugug
aaauccccgggcucaaccugggaacugcaucugauacuggcaagcuugag
ucucguagagggggguagaauuccagguguagcggugaaaugcguagaga
ucuggaggaauaccgguggcgaaggcggcccccuggacgaagacugacgc
ucaggugcgaaagcguggggagcaaacaggauuagauacccugguagucc
acgccguaaacgaugucgacuuggagguugugcccuugaggcguggcuuc
cggagcuaacgcguuaagucgaccgccuggggaguacggccgcaagguua
aaacucaaaugaauugacgggggcccgcacaagcgguggagcaugugguu
uaauucgaugcaacgcgaagaaccuuaccuggucuugacauccacggaag
uuuucagagaugagaaugugccuucgggaaccgugagacaggugcugcau
ggcugucgucagcucguguugugaaauguuggguuaagucccgcaacgag
cgcaacccuuauccuuuguugccagcgguccggccgggaacucaaaggag
acugccagugauaaacuggaggaagguggggaugacgucaagucaucaug
gcccuuacgaccagggcuacacacgugcuacaauggcgcauacaaagaga
agcgaccucgcgagagcaagcggaccucauaaagugcgucguaguccgga
uuggagucugcaacucgacuccaugaagucggaaucgcuaguaaucgugg
aucagaaugccacggugaauacguucccgggccuuguacacaccgcccgu
cacaccaugggaguggguugcaaaagaaguagguagcuuaaccuucggga
gggcgcuuaccacuuugugauucaugacuggggugaagucguaacaaggu
aaccguaggggaaccugcgguuggaucaccuccuua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p16 The compensatory mechanism of a naturally evolved E167K RF2 counteracting the loss of RF1 in bacteria
• Resolution: 2.77 Å
• Binding residue (original residue number in PDB): Q5 Y7 T9 R11 R12 K13 S14 R18 F20 G69 G70 G71 S73 Q75 R85 R99 T105 R106 A108 R109 Q110 V111 E112 R113 K114 K115 V116 G117 K120 R122 R123 R124 Q126 F127 K129 R130
• Binding residue (residue number reindexed from 1): Q2 Y4 T6 R8 R9 K10 S11 R15 F17 G66 G67 G68 S70 Q72 R82 R96 T102 R103 A105 R106 Q107 V108 E109 R110 K111 K112 V113 G114 K117 R119 R120 R121 Q123 F124 K126 R127

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8p16, PDBe:8p16, PDBj:8p16
• PDBsum: 8p16
• UniProt: P0A7X3|RS9_ECOLI Small ribosomal subunit protein uS9 (Gene Name=rpsI)