Structure of PDB 5e81 Chain 79 Binding Site BS02

Receptor Information

>5e81 Chain 79 (length=57) Species: 300852 (Thermus thermophilus HB8)

KRYRALVDPNKIYTIDEVHAKLGIDPRRSDQNNDKTGAIHAHKPEGAKGT
FLRSVRI

Ligand information

>5e81 Chain 14 (length=2855)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucguggggcccucggacaccgaa
uccccagccuagccgaagcuguugggaagcagcgccagagagggugaaag
ccccguaggcgaaagguggggggauaggugaggguacccgaguaccccgu
gguucguggagccaugggggaaucugggcggaccaccgccuaaggcuaag
uacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaag
aaccccgggaggggagugaaauagagccugaaaccgugggcuuacaagca
gucacggccccgcaagggguuguggcgugccuauugaagcaugagccggc
gacucacggucgugggcgagcuuaagccguugaggcggaggcguagggaa
accgaguccgaacagggcgcaaacggcgaaaaguccgcggccguggaccc
gaaaccgggcgagcuagcccuggccagggugaagcuggggugagacccag
uggaggcccgaaccggugggggaugcaaaccccucggaugagcuggggcu
aggagugaaaagcuaaccgagcccggagauagcugguucuccccgaaaug
acuuuagggucagccucaggcgcugacuggggccuguagagcacugauag
ggcuaggaccaaacccugucaaacuccgaagggucccagguggagccugg
gagugagggcgcgagcgauaacguccgcguccgagcgcgggaacaaccga
gaccgccagcuaaggcccccaagucugggcuaagugguaaaggauguggc
gccgcggacagccaggauguuggaagcagccaagagugcgagcucacugg
ucgaguggcgccgcgccgaaaaugaucggggcuuaagcccagcgccgaag
cugcgggucugggggaugaccccaggcgguaggggagcguucccgaugcc
gaugaaggccgacccgcgagggcggcuggagguaagggaagugcgaaugc
cggcaugaguaacgauaaagagggugagaaucccucucgccguaagccca
aggguuccuacgcaauggucgucagcguaggguuaggcgggaccuaaggu
gaagccgaaaggcguagccgaagggcagccgguuaauauuccggcccuuc
ccgcaggugcgauggggggacgcucuaggcuagggggaccggagccaugg
acgagcccggccagaagcgcagggugggagguaggcaaauccgccuccca
acaagcucugcgugguggggaagcccguacgggugacaaccccccgaagc
cagggagccaagaaaagccucuaagcacaaccugcgggaacccguaccgc
aaaccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaac
ccucgccaaggaacucugcaaguuggccccguaacuucgggagaaggggu
gcucccuggggugaugagccccggggagccgcagugaacaggcucuggcg
acuguuuaccaaaaacacagcucucugcgaacucguaagaggagguauag
ggagcgacgcuugcccggugccggaaggucaaggggaggggugcaagccc
cgaaccgaagccccggugaacggcggccguaacuauaacgguccuaaggu
agcgaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacga
ccggagcgcugucucggcgagggacccggugaaauugaacuggccgugaa
gaugcggccuacccguggcaggacgaaaagaccccguggagcuuuacugc
agccugguguuggcucuuggucgcgccuguaggauaggugggagccugug
aacccccgccuccgggugggggggaggcgccggugaauaccacccuggcg
cggcugggggccuaacccucggauggggggacagcgcuuggcgggcaguu
ugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguccc
cucaggcgggacggaaauccgccggagagcgcaaggguagaagggggccu
gacugcgaggccugcaagccgagcaggggcgaaagccgggccuagugaac
cgguggucccguguggaagggccaucgaucaacggauaaaaguuaccccg
gggauaacaggcugaucucccccgagcguccacagcggcggggagguuug
gcaccucgaugucggcucgucgcauccuggggcugaagaaggucccaagg
guugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacguc
gugagacaguucggucucuauccgccacgggcgcaggaggcuugaggggg
gcucuuccuaguacgagaggaccggaagggacgcaccucugguuucccag
cugucccuccaggggcauaagcuggguagccaugugcggaagggauaacc
gcugaaagcaucuaagcgggaagcccgccccaagaugaggccucccacgg
cgucaagccgguaaggacccgggaagaccacccgguggaugggccggggg
uguaagcgccgcgaggcguugagccgaccggucccaaucguccgaggucu
ugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5e81 Novel base-pairing interactions at the tRNA wobble position crucial for accurate reading of the genetic code.
• Resolution: 2.95 Å
• Binding residue (original residue number in PDB): K5 R6 Y7 E42 H44 K46 D166 K167 T168 H172 K205 S221
• Binding residue (residue number reindexed from 1): K1 R2 Y3 E17 H19 K21 D34 K35 T36 H40 K48 S54

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0006417 regulation of translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5e81, PDBe:5e81, PDBj:5e81
• PDBsum: 5e81
• PubMed: 26791911
• UniProt: Q5SLP7|RL1_THET8 Large ribosomal subunit protein uL1 (Gene Name=rplA)