Structure of PDB 4v97 Chain BO Binding Site BS02

Receptor Information

>4v97 Chain BO (length=122) Species: 300852 (Thermus thermophilus HB8)

MIQPQTYLEVADNTGARKIMCIRVLKGSNAKYATVGDVIVASVKEAIPRG
AVKEGDVVKAVVVRTKKEIKRPDGSAIRFDDNAAVIINNQLEPRGTRVFG
PVARELREKGFMKIVSLAPEVL

Ligand information

>4v97 Chain BA (length=2810)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
gcgcggggggaaccuggggaacugaaacaucucaguacccagaggagagg
aaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagccua
aaccguccggcuuguccgggcggggucguggggcccucgcgaauccccag
ccuagccgaagcuguugggaagcagcgccagagagggugaaagccccgua
ggcgaaagguggggggauaggugaggguacccgaguaccccgugguucgu
ggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacuccg
ggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaaccccg
ggaggggagugaaauagagccugaaaccgugggcuuacaagcagucacgg
ccccgcaagggguuguggcgugccuauugaagcaugagccggcgacucac
ggucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgagu
ccgaacagggcgcaguccgcggccguggacccgaaaccgggcgagcuagc
ccuggccagggugaagcuggggugagacccaguggaggcccgaaccggug
ggggaugcaaaccccucggaugagcuggggcuaggagugaaaagcuaacc
gagcccggagauagcugguucuccccgaaaugacuuuagggucagccuca
ggcgcugacuggggccuguagagcacugauagggcuagggggcccaccag
ccuaccaaacccugucaaacuccgaagggucccagguggagccugggagu
gagggcgcgagcgauaacguccgcguccgagcgcgggaacaaccgagacc
gccagcuaaggcccccaagucugggcuaagugguaaaggauguggcgccg
cgaagacagccucgaguggcgccgcgccgaaaaugaucggggcuuaagcc
cagcgccgaagcugcgggucugggggaugaccccaggcgguaggggagcg
uucccgaugccgaugaaggccgacccgcgagggcggcuggagguaaggga
agugcgaaugccggcaugaguaacgauaaagagggugagaaucccucucg
ccguaagcccaaggguuccuacgcaauggucgucagcguaggguuaggcg
ggaccuaaggugaagccgaaaggcguagccgaagggcagccgguuaauau
uccggcccuucccgcaggugcgauggggggacgcucuaggcuagggggac
cggagccauggacgagcccggccagaagcgcagggugggagguaggcaaa
uccgccucccaacaagcucugcgugguggggaagcccgggugacaacccc
ccgaagccagggagccaagaaaagccucuaagcacaaccugcgggaaccc
guaccgcaaaccgacacaggugggcgggugcaagagcacucaggcgcgcg
ggagaacccucgccaaggaacucugcaaguuggccccguaacuucgggag
aaggggugcucccuggggugaugagccccggggagccgcagugaacaggc
ucuggcgacuguuuaccaaaaacacagcucucugcgaacucguaagagga
gguauagggagcgacgcuugcccggugccggaaggucaaggggaggggug
caagccccgaaccgaagccccggugaacggcggccguaacuauaacgguc
cuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaaaagc
guaacgaccggagcgcugucucggcgagggacccggugaaauugaacugg
ccgugaagaugcggccuacccguggcaggacgaaaagaccccguggagcu
uuacugcagccugguguuggcucuuggucgcgccugcguaggauaggugg
gagccugugaacccccgccuccgggugggggggaggcgccggugaaauac
cacccuggcgcggcugggggccuaacccucggauggggggacagcgcuug
gcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcc
caaagguccccucaggcgggacggaaauccgccggagagcgcaaggguag
aagggggccugacugcgaggccugcaagccgagcaggggcgaaagccggg
ccuagugaaccgguggucccguguggaagggccaucgaucaacggauaaa
aguuaccccggggauaacaggcugaucucccccgagcguccacagcggcg
gggagguuuggcaccucgaugucggcucgucgcauccuggggcugaagaa
ggucccaaggguugggcuguucgcccauuaaagcggcacgcgagcugggu
ucagaacgucgugagacaguucggucucuauccgccacgggcgcaggagg
cuugaggggggcucuuccuaguacgagaggaccggaagggacgcaccucu
gguuucccagcugucccuccaggggcauaagcuggguagccaugugcgga
agggauaaccgcugaaagcaucuaagcgggaagcccgccccaagaugagg
ccucccacggcgucaagccgguaaggacccgggaagaccacccgguggau
gggccggggguguaagcgccgcgaggcguugagccgaccggucccaaucg
uccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v97 Reorganization of an intersubunit bridge induced by disparate 16S ribosomal ambiguity mutations mimics an EF-Tu-bound state.
• Resolution: 3.516 Å
• Binding residue (original residue number in PDB): M1 Q3 Q5 T6 I22 R23 S28 N29 K31 Y32 V40 S42 K44 V57 K66 K67 E68 K70
• Binding residue (residue number reindexed from 1): M1 Q3 Q5 T6 I22 R23 S28 N29 K31 Y32 V40 S42 K44 V57 K66 K67 E68 K70

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v97, PDBe:4v97, PDBj:4v97
• PDBsum: 4v97
• PubMed: 23630274
• UniProt: Q5SHP8|RL14_THET8 Large ribosomal subunit protein uL14 (Gene Name=rplN)