Structure of PDB 5ib7 Chain K8 Binding Site BS01

Receptor Information

>5ib7 Chain K8 (length=68) Species: 300852 (Thermus thermophilus HB8)

KLSEVRKQLEEARKLSPVELEKLVREKKRELMELRFQASIGQLSQNHKIR
DLKRQIARLLTVLNEKRR

Ligand information

>5ib7 Chain 1H (length=2860)

aagaugguaagggcccacgguggaugccucggcacccgagccgaugaagg
acguggcuaccugcgauaagccagggggagccgguagcgggcguggaucc
cuggauguccgaaugggggaacccggccggcgggaacgccggucaccgcg
cuuuuugcgcggggggaaccuggggaacugaaacaucucaguacccagag
gagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggacc
agccuaaaccguccggcuuguccgggcggggucguggggcccucggacac
cgaauccccagccuagccgaagcuguugggaagcagcgccagagagggug
aaagccccguaggcgaaagguggggggauaggugaggguacccgaguacc
ccgugguucguggagccaugggggaaucugggcggaccaccgccuaaggc
uaaguacuccgggugaccgauagcgcaccaguaccgugagggaaagguga
aaagaaccccgggaggggagugaaauagagccugaaaccgugggcuuaca
agcagucacggccccgcaagggguuguggcgugccuauugaagcaugagc
cggcgacucacggucgugggcgagcuuaagccguugaggcggaggcguag
ggaaaccgaguccgaacagggcgcaaacgggggccgaaaaguccgcggcc
guggacccgaaaccgggcgagcuagcccuggccagggugaagcuggggug
agacccaguggaggcccgaaccggugggggaugcaaaccccucggaugag
cuggggcuaggagugaaaagcuaaccgagcccggagauagcugguucucc
ccgaaaugacuuuagggucagccucaggcgcugacuggggccuguagagc
acugauagggcuaggggccuccaaacccugucaaacuccgaaggguccca
gguggagccugggagugagggcgcgagcgauaacguccgcguccgagcgc
gggaacaaccgagaccgccagcuaaggcccccaagucugggcuaaguggu
aaaggauguggcgccgcgaagacagccaggggagcucauuuaaagagugc
gcucacuggucgaguggcgccgcgccgaaaaugaucggggcuuaagccca
gcgccgaagcugcgggucugggggaugaccccaggcgguaggggagcguu
cccgaugccgaugaaggccgacccgcgagggcggcuggagguaagggaag
ugcgaaugccggcaugaguaacgauaaagagggugagaaucccucucgcc
guaagcccaaggguuccuacgcaauggucgucagcguaggguuaggcggg
accuaaggugaagccgaaaggcguagccgaagggcagccgguuaauauuc
cggcccuucccgcaggugcgauggggggacgcucuaggcuagggggaccg
gagccauggacgagcccggccagaagcgcagggugggagguaggcaaauc
cgccucccaacaagcucugcgugguggggaagcccguacgggugacaacc
ccccgaagccagggagccaagaaaagccucuaagcacaaccugcgggaac
ccguaccgcaaaccgacacaggugggcgggugcaagagcacucaggcgcg
cgggagaacccucgccaaggaacucugcaaguuggccccguaacuucggg
agaaggggugcucccuggggugaugagccccggggagccgcagugaacag
gcucuggcgacuguuuaccaaaaacacagcucucugcgaacucguaagag
gagguauagggagcgacgcuugcccggugccggaaggucaaggggagggg
ugcaagccccgaaccgaagccccggugaacggcggccguaacuauaacgg
uccuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaaaa
gcguaacgaccggagcgcugucucggcgagggacccggugaaauugaacu
ggccgugaagaugcggccuacccguggcaggacgaaaagaccccguggag
cuuuacugcagccugguguuggcucuuggucgcgccugcguaggauaggu
gggagccugugaacccccgccuccgggugggggggaggcgccggugaaau
accacccuggcgcggcugggggccuaacccucggauggggggacagcgcu
uggcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggcg
cccaaagguccccucaggcgggacggaaauccgccggagagcgcaagggu
agaagggggccugacugcgaggccugcaagccgagcaggggcgaaagccg
ggccuagugaaccgguggucccguguggaagggccaucgaucaacggaua
aaaguuaccccggggauaacaggcugaucucccccgagcguccacagcgg
cggggagguuuggcaccucgaugucggcucgucgcauccuggggcugaag
aaggucccaaggguugggcuguucgcccauuaaagcggcacgcgagcugg
guucagaacgucgugagacaguucggucucuauccgccacgggcgcagga
ggcuugaggggggcucuuccuaguacgagaggaccggaagggacgcaccu
cugguuucccagcugucccuccaggggcauaagcuggguagccaugugcg
gaagggauaaccgcugaaagcaucuaagcgggaagcccgccccaagauga
ggccucccacggcgagccgguaaggacccgggaagaccacccgguggaug
ggccggggguguaagcgccgcgaggcguugagccgaccggucccaaucgu
ccgaggucuu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5ib7 The ribosome prohibits the GU wobble geometry at the first position of the codon-anticodon helix.
• Resolution: 2.99 Å
• Binding residue (original residue number in PDB): K2 L3 R7 L10 R14 Q46 N47 H48 I50 R51 K54 R55 A58 R59 L61 N65 R69
• Binding residue (residue number reindexed from 1): K1 L2 R6 L9 R13 Q45 N46 H47 I49 R50 K53 R54 A57 R58 L60 N64 R68

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:5ib7, PDBe:5ib7, PDBj:5ib7
• PDBsum: 5ib7
• PubMed: 27174928
• UniProt: Q5SHP6|RL29_THET8 Large ribosomal subunit protein uL29 (Gene Name=rpmC)