Structure of PDB 6qnq Chain B5 Binding Site BS01

Receptor Information

>6qnq Chain B5 (length=93) Species: 300852 (Thermus thermophilus HB8)

KTAYDVILAPVLSEKAYAGFAEGKYTFWVHPKATKTEIKNAVETAFKVKV
VKVNTLHVRGKKKRLGRYLGKRPDRKKAIVQVAPGQKIEALEG

Ligand information

>6qnq Chain 14 (length=2879)

caagaugguaagggcccacgguggaugccucggcacccgagccgaugaag
gacguggcuaccugcgauaagccagggggagccgguagcgggcguggauc
ccuggauguccgaaugggggaacccggccggcgggaacgccggucaccgc
gcuugcgcggggggaaccuggggaacugaaacaucucaguacccagagga
gaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccag
ccuaaaccguccggcuuguccgggcggggucguggggcccucggacaccg
aauccccagccuagccgaagcuguugggaagcagcgccagagagggugaa
agccccguaggcgaaagguggggggauaggugaggguacccgaguacccc
gugguucguggagccaugggggaaucugggcggaccaccgccuaaggcua
aguacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaa
agaaccccgggaggggagugaaauagagccugaaaccgugggcuuacaag
cagucacggccccgcaagggguuguggcgugccuauugaagcaugagccg
gcgacucacggucgugggcgagcuuaagccguugaggcggaggcguaggg
aaaccgaguccgaacagggcgcaaaaaguccgcggccguggacccgaaac
cgggcgagcuagcccuggccagggugaagcuggggugagacccaguggag
gcccgaaccggugggggaugcaaaccccucggaugagcuggggcuaggag
ugaaaagcuaaccgagcccggagauagcugguucuccccgaaaugacuuu
agggucagccucaggcgcugacuggggccuguagagcacugauagggcua
gggggcccaccagccuaccaaacccugucaaacuccgaagggucccaggu
ggagccugggagugagggcgcgagcgauaacguccgcguccgagcgcggg
aacaaccgagaccgccagcuaaggcccccaagucugggcuaagugguaaa
ggauguggcgccgcgaagacagccaggauguuggcuuagaagcagccauc
auuuaaagagugcguaauagcucacuggucgaguggcgccgcgccgaaaa
ugaucggggcuuaagcccagcgccgaagcugcgggucugggggaugaccc
caggcgguaggggagcguucccgaugccgaugaaggccgacccgcgaggg
cggcuggagguaagggaagugcgaaugccggcaugaguaacgauaaagag
ggugagaaucccucucgccguaagcccaaggguuccuacgcaauggucgu
cagcguaggguuaggcgggaccuaaggugaagccgaaaggcguagccgaa
gggcagccgguuaauauuccggcccuucccgcaggugcgauggggggacg
cucuaggcuagggggaccggagccauggacgagcccggccagaagcgcag
ggugggagguaggcaaauccgccucccaacaagcucugcgugguggggaa
gcccguacgggugacaaccccccgaagccagggagccaagaaaagccucu
aagcacaaccugcgggaacccguaccgcaaaccgacacaggugggcgggu
gcaagagcacucaggcgcgcgggagaacccucgccaaggaacucugcaag
uuggccccguaacuucgggagaaggggugcucccuggggugaugagcccc
ggggagccgcagugaacaggcucuggcgacuguuuaccaaaaacacagcu
cucugcgaacucguaagaggagguauagggagcgacgcuugcccggugcc
ggaaggucaaggggaggggugcaagccccgaaccgaagccccggugaacg
gcggccguaacuauaacgguccuaagguagcgaaauuccuugucggguaa
guuccgaccugcacgaaaagcguaacgaccggagcgcugucucggcgagg
gacccggugaaauugaacuggccgugaagaugcggccuacccguggcagg
acgaaaagaccccguggagcuuuacugcagccugguguuggcucuugguc
gcgccugcguaggauaggugggagccugugaacccccgccuccggguggg
ggggaggcgccggugaaauaccacccuggcgcggcugggggccuaacccu
cggauggggggacagcgcuuggcgggcaguuugacuggggcggucgccuc
cuaaaagguaacggaggcgcccaaagguccccucaggcgggacggaaauc
cgccggagagcgcaaggguagaagggggccugacugcgaggccugcaagc
cgagcaggggcgaaagccgggccuagugaaccgguggucccguguggaag
ggccaucgaucaacggauaaaaguuaccccggggauaacaggcugaucuc
ccccgagcguccacagcggcggggagguuuggcaccucgaugucggcucg
ucgcauccuggggcugaagaaggucccaaggguugggcuguucgcccauu
aaagcggcacgcgagcuggguucagaacgucgugagacaguucggucucu
auccgccacgggcgcaggaggcuugaggggggcucuuccuaguacgagag
gaccggaagggacgcaccucugguuucccagcugucccuccaggggcaua
agcuggguagccaugugcggaagggauaaccgcugaaagcaucuaagcgg
gaagcccgccccaagaugaggccucccacggcagccgguaaggacccggg
aagaccacccgguggaugggccggggguguaagcgccgcgaggcguugag
ccgaccggucccaaucguccgaggucuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6qnq Importance of potassium ions for ribosome structure and function revealed by long-wavelength X-ray diffraction.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): K2 K16 K25 H31 T35 K36 T37 E38 K40 N41 E44 K50 N55 T56 L57 H58 R60 K62 K63 K64 R65 L66 Y69 G71 K72 R73 P74 D75 K78 I80
• Binding residue (residue number reindexed from 1): K1 K15 K24 H30 T34 K35 T36 E37 K39 N40 E43 K49 N54 T55 L56 H57 R59 K61 K62 K63 R64 L65 Y68 G70 K71 R72 P73 D74 K77 I79

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6qnq, PDBe:6qnq, PDBj:6qnq
• PDBsum: 6qnq
• PubMed: 31175275
• UniProt: Q5SHP0|RL23_THET8 Large ribosomal subunit protein uL23 (Gene Name=rplW)