Structure of PDB 6osi Chain YF Binding Site BS01

Receptor Information

>6osi Chain YF (length=202) Species: 300852 (Thermus thermophilus HB8)

VYQIPVLSPSGRRELAADLPAEINPHLLWEVVRWQLAKRRRGTASTKTRG
EVAYSGRKIWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKV
RKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVL
LVTGNELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNR
IG

Ligand information

>6osi 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: 6osi Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon-anticodon pairing.
• Resolution: 4.14 Å
• Binding residue (original residue number in PDB): H31 R38 Q40 K43 R44 R45 R46 T48 S50 K52 T53 R54 V57 A58 Y59 S60 R62 K63 Q67 K68 H69 R74 H75 I82 V84 G85 V89 F90 Y99 T100 P102 K103 K104 R106 K108 T136 R165 R168 N169 T175 L176 N182
• Binding residue (residue number reindexed from 1): H26 R33 Q35 K38 R39 R40 R41 T43 S45 K47 T48 R49 V52 A53 Y54 S55 R57 K58 Q62 K63 H64 R69 H70 I77 V79 G80 V84 F85 Y94 T95 P97 K98 K99 R101 K103 T131 R160 R163 N164 T170 L171 N177

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6osi, PDBe:6osi, PDBj:6osi
• PDBsum: 6osi
• PubMed: 33016876
• UniProt: Q5SHN9|RL4_THET8 Large ribosomal subunit protein uL4 (Gene Name=rplD)