Structure of PDB 6gsl Chain C8 Binding Site BS01

Receptor Information

>6gsl Chain C8 (length=115) Species: 300852 (Thermus thermophilus HB8)

PRAKTGVVRRRKHKKILKLAKGYWGLRSKSFRKARETLFAAGNYAYAHRK
RRKRDFRRLWIVRINAACRQHGLNYSTFIHGLKKAGIEVDRKNLADLAVR
EPQVFAELVERAKAA

Ligand information

>6gsl Chain 1H (length=2895)

aagaugguaagggcccacgguggaugccucggcacccgagccgaugaagg
acguggcuaccugcgauaagccagggggagccgguagcgggcguggaucc
cuggauguccgaaugggggaacccggccggcgggaacgccggucaccgcg
cuuuuugcgcggggggaaccuggggaacugaaacaucucaguacccagag
gagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggacc
agccuaaaccguccggcuuguccgggcggggucguggggcccucggacac
cgaauccccagccuagccgaagcuguugggaagcagcgccagagagggug
aaagccccguaggcgaaagguggggggauaggugaggguacccgaguacc
ccgugguucguggagccaugggggaaucugggcggaccaccgccuaaggc
uaaguacuccgggugaccgauagcgcaccaguaccgugagggaaagguga
aaagaaccccgggaggggagugaaauagagccugaaaccgugggcuuaca
agcagucacggccccgcaagggguuguggcgugccuauugaagcaugagc
cggcgacucacggucgugggcgagcuuaagccguugaggcggaggcguag
ggaaaccgaguccgaacagggcgcaaacgggggccgaaaaguccgcggcc
guggacccgaaaccgggcgagcuagcccuggccagggugaagcuggggug
agacccaguggaggcccgaaccggugggggaugcaaaccccucggaugag
cuggggcuaggagugaaaagcuaaccgagcccggagauagcugguucucc
ccgaaaugacuuuagggucagccucaggcgcugacuggggccuguagagc
acugauagggcuagggggcccaccagccuaccaaacccugucaaacuccg
aagggucccagguggagccugggagugagggcgcgagcgauaacguccgc
guccgagcgcgggaacaaccgagaccgccagcuaaggcccccaagucugg
gcuaagugguaaaggauguggcgccgcgaagacagccaggauguuggcuu
agaagcagccaucauuuaaagagugcguaauagcucacuggucgaguggc
gccgcgccgaaaaugaucggggcuuaagcccagcgccgaagcugcggguc
ugggggaugaccccaggcgguaggggagcguucccgaugccgaugaaggc
cgacccgcgagggcggcuggagguaagggaagugcgaaugccggcaugag
uaacgauaaagagggugagaaucccucucgccguaagcccaaggguuccu
acgcaauggucgucagcguaggguuaggcgggaccuaaggugaagccgaa
aggcguagccgaagggcagccgguuaauauuccggcccuucccgcaggug
cgauggggggacgcucuaggcuagggggaccggagccauggacgagcccg
gccagaagcgcagggugggagguaggcaaauccgccucccaacaagcucu
gcgugguggggaagcccguacgggugacaaccccccgaagccagggagcc
aagaaaagccucuaagcacaaccugcgggaacccguaccgcaaaccgaca
caggugggcgggugcaagagcacucaggcgcgcgggagaacccucgccaa
ggaacucugcaaguuggccccguaacuucgggagaaggggugcucccugg
ggugaugagccccggggagccgcagugaacaggcucuggcgacuguuuac
caaaaacacagcucucugcgaacucguaagaggagguauagggagcgacg
cuugcccggugccggaaggucaaggggaggggugcaagccccgaaccgaa
gccccggugaacggcggccguaacuauaacgguccuaagguagcgaaauu
ccuugucggguaaguuccgaccugcacgaaaagcguaacgaccggagcgc
ugucucggcgagggacccggugaaauugaacuggccgugaagaugcggcc
uacccguggcaggacgaaaagaccccguggagcuuuacugcagccuggug
uuggcucuuggucgcgccugcguaggauaggugggagccugugaaccccc
gccuccgggugggggggaggcgccggugaaauaccacccuggcgcggcug
ggggccuaacccucggauggggggacagcgcuuggcgggcaguuugacug
gggcggucgccuccuaaaagguaacggaggcgcccaaagguccccucagg
cgggacggaaauccgccggagagcgcaaggguagaagggggccugacugc
gaggccugcaagccgagcaggggcgaaagccgggccuagugaaccggugg
ucccguguggaagggccaucgaucaacggauaaaaguuaccccggggaua
acaggcugaucucccccgagcguccacagcggcggggagguuuggcaccu
cgaugucggcucgucgcauccuggggcugaagaaggucccaaggguuggg
cuguucgcccauuaaagcggcacgcgagcuggguucagaacgucgugaga
caguucggucucuauccgccacgggcgcaggaggcuugaggggggcucuu
ccuaguacgagaggaccggaagggacgcaccucugguuucccagcugucc
cuccaggggcauaagcuggguagccaugugcggaagggauaaccgcugaa
agcaucuaagcgggaagcccgccccaagaugaggccucccacggcgucaa
gccgguaaggacccgggaagaccacccgguggaugggccggggguguaag
cgccgcgaggcguugagccgaccggucccaaucguccgaggucuu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6gsl Tautomeric G•U pairs within the molecular ribosomal grip and fidelity of decoding in bacteria.
• Resolution: 3.16 Å
• Binding residue (original residue number in PDB): P2 R3 A4 K5 T6 G7 V8 R10 R11 R12 H14 K15 K16 K19 G23 Y24 W25 G26 L27 R28 K30 S31 F32 R33 K34 R36 E37 A42 Y45 A46 Y47 H49 R50 K51 R52 R53 K54 R55 F57 R58 R59 W61 I62 N66 R70 N75 Y76 S77 H81 R92 K93 N94
• Binding residue (residue number reindexed from 1): P1 R2 A3 K4 T5 G6 V7 R9 R10 R11 H13 K14 K15 K18 G22 Y23 W24 G25 L26 R27 K29 S30 F31 R32 K33 R35 E36 A41 Y44 A45 Y46 H48 R49 K50 R51 R52 K53 R54 F56 R57 R58 W60 I61 N65 R69 N74 Y75 S76 H80 R91 K92 N93

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6gsl, PDBe:6gsl, PDBj:6gsl
• PDBsum: 6gsl
• PubMed: 29931292
• UniProt: P60491|RL20_THET8 Large ribosomal subunit protein bL20 (Gene Name=rplT)