Structure of PDB 5el6 Chain H5 Binding Site BS01

Receptor Information

>5el6 Chain H5 (length=58) Species: 300852 (Thermus thermophilus HB8)

PRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVA
HLVRVEVV

Ligand information

>5el6 Chain 14 (length=2861)

ggucaagaugguaagggcccacgguggaugccucggcacccgagccgaug
aaggacguggcuaccugcgauaagccagggggagccgguagcgggcgugg
aucccuggauguccgaaugggggaacccggccggcgggaacgccggucac
cgcgcuugcgcggggggaaccuggggaacugaaacaucucaguacccaga
ggagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggac
cagccuaaaccguccggcuuguccgggcggggucguggggcccucggaca
ccgaauccccagccuagccgaagcuguugggaagcagcgccagagagggu
gaaagccccguaggcgaaagguggggggauaggugaggguacccgaguac
cccgugguucguggagccaugggggaaucugggcggaccaccgccuaagg
cuaaguacuccgggugaccgauagcgcaccaguaccgugagggaaaggug
aaaagaaccccgggaggggagugaaauagagccugaaaccgugggcuuac
aagcagucacggccccgcaagggguuguggcgugccuauugaagcaugag
ccggcgacucacggucgugggcgagcuuaagccguugaggcggaggcgua
gggaaaccgaguccgaacagggcgcaaacggcgaaaaguccgcggccgug
gacccgaaaccgggcgagcuagcccuggccagggugaagcuggggugaga
cccaguggaggcccgaaccggugggggaugcaaaccccucggaugagcug
gggcuaggagugaaaagcuaaccgagcccggagauagcugguucuccccg
aaaugacuuuagggucagccucaggcgcugacuggggccuguagagcacu
gauagggcuaggaccaaacccugucaaacuccgaagggucccagguggag
ccugggagugagggcgcgagcgauaacguccgcguccgagcgcgggaaca
accgagaccgccagcuaaggcccccaagucugggcuaagugguaaaggau
guggcgccgcggacagccaggauguuggaagcagccaagagugcgagcuc
acuggucgaguggcgccgcgccgaaaaugaucggggcuuaagcccagcgc
cgaagcugcgggucugggggaugaccccaggcgguaggggagcguucccg
augccgaugaaggccgacccgcgagggcggcuggagguaagggaagugcg
aaugccggcaugaguaacgauaaagagggugagaaucccucucgccguaa
gcccaaggguuccuacgcaauggucgucagcguaggguuaggcgggaccu
aaggugaagccgaaaggcguagccgaagggcagccgguuaauauuccggc
ccuucccgcaggugcgauggggggacgcucuaggcuagggggaccggagc
cauggacgagcccggccagaagcgcagggugggagguaggcaaauccgcc
ucccaacaagcucugcgugguggggaagcccguacgggugacaacccccc
gaagccagggagccaagaaaagccucuaagcacaaccugcgggaacccgu
accgcaaaccgacacaggugggcgggugcaagagcacucaggcgcgcggg
agaacccucgccaaggaacucugcaaguuggccccguaacuucgggagaa
ggggugcucccuggggugaugagccccggggagccgcagugaacaggcuc
uggcgacuguuuaccaaaaacacagcucucugcgaacucguaagaggagg
uauagggagcgacgcuugcccggugccggaaggucaaggggaggggugca
agccccgaaccgaagccccggugaacggcggccguaacuauaacgguccu
aagguagcgaaauuccuugucggguaaguuccgaccugcacgaaaagcgu
aacgaccggagcgcugucucggcgagggacccggugaaauugaacuggcc
gugaagaugcggccuacccguggcaggacgaaaagaccccguggagcuuu
acugcagccugguguuggcucuuggucgcgccugcuaggauaggugggag
ccugugaacccccgccuccgggugggggggaggcgccggugaauaccacc
cuggcgcggcugggggccuaacccucggauggggggacagcgcuuggcgg
gcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcccaaa
gguccccucaggcgggacggaaauccgccggagagcgcaaggguagaagg
gggccugacugcgaggccugcaagccgagcaggggcgaaagccgggccua
gugaaccgguggucccguguggaagggccaucgaucaacggauaaaaguu
accccggggauaacaggcugaucucccccgagcguccacagcggcgggga
gguuuggcaccucgaugucggcucgucgcauccuggggcugaagaagguc
ccaaggguugggcuguucgcccauuaaagcggcacgcgagcuggguucag
aacgucgugagacaguucggucucuauccgccacgggcgcaggaggcuug
aggggggcucuuccuaguacgagaggaccggaagggacgcaccucugguu
ucccagcugucccuccaggggcauaagcuggguagccaugugcggaaggg
auaaccgcugaaagcaucuaagcgggaagcccgccccaagaugaggccuc
ccacggcgucaagccgguaaggacccgggaagaccacccgguggaugggc
cggggguguaagcgccgcgaggcguugagccgaccggucccaaucguccg
aggucuugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5el6 Novel base-pairing interactions at the tRNA wobble position crucial for accurate reading of the genetic code.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): K10 S11 I13 G14 Y15 P16 K17 A21 A22 K24 A25 R30 L31 P41 A42 G45 N46 K49
• Binding residue (residue number reindexed from 1): K9 S10 I12 G13 Y14 P15 K16 A20 A21 K23 A24 R29 L30 P40 A41 G44 N45 K48

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

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:5el6, PDBe:5el6, PDBj:5el6
• PDBsum: 5el6
• PubMed: 26791911
• UniProt: Q5SHQ6|RL30_THET8 Large ribosomal subunit protein uL30 (Gene Name=rpmD)