Structure of PDB 5ibb Chain 9I Binding Site BS01

Receptor Information
>5ibb Chain 9I (length=68) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKT
IKRARILGLLPFTEKLVR
Ligand information
>5ibb Chain 13 (length=1496) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuuuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaa
gacaugcaagucgugcgggccguggucagcggcggacgggugaguaacgc
gugggugaccuacccggaagagggggacaacccggggaaacucgggcuaa
ucccccauguggacccgccccuugggguguguccaaagggcuuugcccgc
uuccggaugggcccgcgucccaucagcuaguuggugggguaauggcccac
caaggcgacgacggguagccggucugagaggauggccggccacaggggca
cugagacacgggccccacuccuacgggaggcagcaguuaggaaucuuccg
caaugggcgcaagccugacggagcgacgccgcuuggaggaagaagcccuu
cgggguguaaacuccugaacccgggacgaaacccccgacgaggggacuga
cgguaccgggguaauagcgccggccaacuccgugccagcagccgcgguaa
uacggagggcgcgagcguuacccggauucacugggcguaaagggcgugua
ggcggccuggggcgucccaugugaaagaccacggcucaaccgugggggag
cgugggauacgcucaggcuagacggugggagagggugguggaauucccgg
aguagcggugaaaugcgcagauaccgggaggaacgccgauggcgaaggca
gccaccugguccacccgugacgcugaggcgcgaaagcguggggagcaaac
cggauuagauacccggguaguccacgcccuaaacgaugcgcgcuaggucu
cugggucuccugggggccgaagcuaacgcguuaagcgcgccgccugggga
guacggccgcaaggcugaaacucaaaggaauugacgggggcccgcacaag
cgguggagcaugugguuuaauucgaagcaacgcgaagaaccuuaccaggc
cuugacaugcuagggaacccgggugaaagccuggggugccccgcgagggg
agcccuagcacaggugcugcauggccgucgucagcucgugccgugaggug
uuggguuaagucccgcaacgagcgcaacccccgccguuaguugccagcgg
uucggccgggcacucuaacgggacugcccgcgaaagcgggaggaaggagg
ggacgacgucuggucagcauggcccuuacggccugggcgacacacgugcu
acaaugcccacuacaaagcgaugccacccggcaacggggagcuaaucgca
aaaaggugggcccaguucggauuggggucugcaacccgaccccaugaagc
cggaaucgcuaguaaucgcggaucagccaugccgcggugaauacguuccc
gggccuuguacacaccgcccgucacgccaugggagcgggcucuacccgaa
gucgccgggagccuacgggcaggcgccgaggguagggcccgugacugggg
cgaagucguaacaagguagcuguaccggaaggugcggcuggacacc
.......<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..
<<<.<<<..<<<..<<.<<<<..>>>>.>>>>>......<<.......<<
<<<<<<..<<...<<<<<<<.<<<<<....<<<<<......>>>>>....
.>>>>>...<<<<<.<<<<<....>>>>>.>>>>>..<<<<...>>>>.>
>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<.......>>>>>
>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>.<<<<<.
<.........>>>>>>.<<<<....>>>>...>>>>>>>........<<<
....<<<<....>>>>..>>>..>>.>>>>>>..<<<<......<<<<..
..>>>>.....>>>>....<<<<<........<<<<.....>>>>.....
.....>>>>>......<<<<<(((...<<<<<.....<<.)))>>.....
..>>>>>>>>>>..>>>>>>>>>..........<<<((.....<<<<...
<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>>>....>
>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<<<<<<
.<..<<<......>>>.....>.>>>>>>>...........<<....>>.
>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<<<<...<<...<
<<<.........>>>>...>>>>>>>>..........<<<<<<..<<<<<
<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<..
....<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<.<<.<<
<<<<..<<<<<<<<<<......<<........>>..........<<<<<<
<......<<<<<<<<..<<<<<<<....>>>>>>>...............
..>>>>>>>>.<<<.<<<..<<<<<<.......<<<<<<<<<....>>>.
.<<<<......>>>>..>>>>>>.....<<<<.<<<<<<...<<<..<<<
.....>>>>>>....>>>>>>.....<<<<<....>>>>>........>>
>>.........>>>...>>>>>>>>>...>>>>>>>...>>.>>>>>>>>
.....<<<<<<<.....<<<..<<..<<<<....>>>>..>>....>>>.
....>>>>>>>......<....<<<<<<<........>>>>>>>....>.
....>>>>>>....<<<<<<<..........>>>>>>>......>>...>
>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<<<<<<<...
<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>>>>>..>>>.>>
>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>.......
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5ibb The ribosome prohibits the GU wobble geometry at the first position of the codon-anticodon helix.
Resolution2.96 Å
Binding residue
(original residue number in PDB)		K49 I50 A60 K61 Q63 R64 K68 K71 R72 R74 I75 F81
Binding residue
(residue number reindexed from 1)		K30 I31 A41 K42 Q44 R45 K49 K52 R53 R55 I56 F62
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
GO:0070181 small ribosomal subunit rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5ibb, PDBe:5ibb, PDBj:5ibb
PDBsum5ibb
PubMed27174928
UniProtQ5SLQ0|RS18_THET8 Small ribosomal subunit protein bS18 (Gene Name=rpsR)

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