Structure of PDB 6nsh Chain YR Binding Site BS01

Receptor Information

>6nsh Chain YR (length=117) Species: 300852 (Thermus thermophilus HB8)

RHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHL
IHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKLA
ERRRGDGAPLALVELVE

Ligand information

>6nsh Chain YA (length=2883)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucguggggcccucggacaccgaa
uccccagccuagccgaagcuguugggaagcagcgccagagagggugaaag
ccccguaggcgaaagguggggggauaggugaggguacccgaguaccccgu
gguucguggagccaugggggaaucugggcggaccaccgccuaaggcuaag
uacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaag
aaccccgggaggggagugaaauagagccugaaaccgugggcuuacaagca
gucacggccccgcaagggguuguggcgugccuauugaagcaugagccggc
gacucacggucgugggcgagcuuaagccguugaggcggaggcguagggaa
accgaguccgaacagggcgcaagcgcaaaguccgcggccguggacccgaa
accgggcgagcuagcccuggccagggugaagcuggggugagacccagugg
aggcccgaaccggugggggaugcaaaccccucggaugagcuggggcuagg
agugaaaagcuaaccgagcccggagauagcugguucuccccgaaaugacu
uuagggucagccucaggcgcugacuggggccuguagagcacugauagggc
uagggggcccaccagccuaccaaacccugucaaacuccgaagggucccag
guggagccugggagugagggcgcgagcgauaacguccgcguccgagcgcg
ggaacaaccgagaccgccagcuaaggcccccaagucugggcuaaguggua
aaggauguggcgccgcgaagacagccaggagguuggcuuagaagcagcca
uccuuuaaagagugcguaauagcucacuggucgaguggcgccgcgccgaa
aaugaucggggcuuaagcccagcgccgaagcugcgggucugggggaugac
cccaggcgguaggggagcguucccgaugccgaugaaggccgacccgcgag
ggcggcuggagguaagggaagugcgaaugccggcaugaguaacgauaaag
agggugagaaucccucucgccguaagcccaaggguuccuacgcaaugguc
gucagcguaggguuaggcgggaccuaaggugaagccgaaaggcguagccg
aagggcagccgguuaauauuccggcccuucccgcaggugcgaugggggga
cgcucuaggcuagggggaccggagccauggacgagcccggccagaagcgc
agggugggagguaggcaaauccgccucccaacaagcucugcguggugggg
aagcccguacgggugacaaccccccgaagccagggagccaagaaaagccu
cuaagcacaaccugcgggaacccguaccgcaaaccgacacaggugggcgg
gugcaagagcacucaggcgcgcgggagaacccucgccaaggaacucugca
aguuggccccguaacuucgggagaaggggugcucccuggggugaugagcc
ccggggagccgcagugaacaggcucuggcgacuguuuaccaaaaacacag
cucucugcgaacucguaagaggagguauagggagcgacgcuugcccggug
ccggaaggucaaggggaggggugcaagccccgaaccgaagccccggugaa
cggcggccguaacuauaacgguccuaagguagcgaaauuccuugucgggu
aaguuccgaccugcacgaaaagcguaacgaccggagcgcugucucggcga
gggacccggugaaauugaacuggccgugaagaugcggccuacccguggca
ggacgaaaagaccccguggagcuuuacugcagccugguguuggcucuugg
ucgcgccugcguaggauaggugggagccugugaacccccgccuccgggug
ggggggaggcgccggugaaauaccacccuggcgcggcugggggccuaacc
cucggauggggggacagcgcuuggcgggcaguuugacuggggcggucgcc
uccuaaaagguaacggaggcgcccaaagguccccucaggcgggacggaaa
uccgccggagagcgcaaggguagaagggggccugacugcgaggccugcaa
gccgagcaggggcgaaagccgggccuagugaaccgguggucccgugugga
agggccaucgaucaacggauaaaaguuaccccggggauaacaggcugauc
ucccccgagcguccacagcggcggggagguuuggcaccucgaugucggcu
cgucgcauccuggggcugaagaaggucccaaggguugggcuguucgccca
uuaaagcggcacgcgagcuggguucagaacgucgugagacaguucggucu
cuauccgccacgggcgcaggaggcuugaggggggcucuuccuaguacgag
aggaccggaagggacgcaccucugguuucccagcugucccuccaggggca
uaagcuggguagccaugugcggaagggauaaccgcugaaagcaucuaagc
gggaagcccgccccaagaugaggccucccacggcgucaagccgguaagga
cccgggaagaccacccgguggaugggccggggguguaagcgccgcgaggc
guugagccgaccggucccaaucguccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6nsh Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon-anticodon pairing.
• Resolution: 3.397 Å
• Binding residue (original residue number in PDB): R2 H3 L4 K5 S6 R8 K9 N11 R12 H13 S14 H16 R17 L20 R22 N23 K26 H31 I34 T35 T36 P39 K40 K42 R45 D49 H50 H53 R57 L60 H61 R63 R64 L67 R68 Q71 R77 R90 Q91 G92 G93 T95 R96 K99 R104 R105 G106 D107
• Binding residue (residue number reindexed from 1): R1 H2 L3 K4 S5 R7 K8 N10 R11 H12 S13 H15 R16 L19 R21 N22 K25 H30 I33 T34 T35 P38 K39 K41 R44 D48 H49 H52 R56 L59 H60 R62 R63 L66 R67 Q70 R76 R89 Q90 G91 G92 T94 R95 K98 R103 R104 G105 D106

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6nsh, PDBe:6nsh, PDBj:6nsh
• PDBsum: 6nsh
• PubMed: 33016876
• UniProt: Q9Z9H5|RL17_THET8 Large ribosomal subunit protein bL17 (Gene Name=rplQ)