Structure of PDB 8hku Chain L19E Binding Site BS01

Receptor Information

>8hku Chain L19E (length=144) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

PEFQLQRRLAADIAGVGLNNIKFNPERLEEVEEALTREDIKKLIKERAVI
VNPKRGISSGRLKERKHKRRSKGEGRKHGSRKGKSGARTGDKEIWINKIR
KIRRYIRWLRDNNVIDKHTYRLLYKRAKGNYFKNLSDVKSYLRQ

Ligand information

>8hku Chain A23S (length=2995)

aagccucccgguggauggcucggcucgggcaccgaagaagggcgcggcaa
gcagcgaaaugcucgggugaggcgcaagcagccguugaccccgagguccc
cuaaugggauauccugccggguuuccggcucccgguuuauaacugggugg
gaaccccccgaacggaaacaucuuaguagggggaggaaaagaaaucaauu
gagauccccugaguaggggcgaccgaaagggggacagcccaaacuaaacc
ugccgaugauaagucgguggggaugugguguuacgaccucuagccugagg
uugaccucggcuuuccuaaccuaucuagccgaacuccccuggaacggggg
gccauagagggugaaagccccguaggcuaaagauagguggaaaguggcua
gagguagaguaccauccccugguuugggggugggaaguuaggggacacgu
gccucuaaggcuaaauaugucccgagaccgauagcaaacuaaguaccgug
agggaaagcugaaaagaaccccggaagggggagugcaaagagccugaaac
cgggugguuauacaggguguggcucgaaagaagugaacccuuccgaagga
aaggggcgcaagcccuuaguacgaggaagggcgaucggggucacgccuuu
cgucuugaaacacgggccggggaguucacaucaguggcgagcuuaaggag
auuaucuccgaaggcauagggaaaccaagugcccgcagccuaguuucuag
gcgaggggcagggucugucagggccugaagccacugaugugaggcuagaa
accgggcgaucuaguccggggcaggcugaaggugggggaaaccccacugg
agggccgaauagggguucugacgugcaauucguucccuugaccucggacu
aggggcaaaagaccaaucuagcccggugauagcuaguuccccccgaaaug
cguccuagcgcagccucccuaaaggcagcucgcgggguagagugacagau
cgggggcuccaggcgccuggggcuuccggucuaacuccgaacccacgagc
gccgaagaaggggggagugggucacucggcguaagguuggguggcaaaag
gggaacaacccagaccuggguuaaggccccaaagucccggcuaagugcca
acgaaaaggcgucuccagccuuagacagcgggaaggugggcccagcagca
gccauccucuaaggagugcguaacagcucacccgccgaggcuggaggccc
uaaagauuggucggggcucaagccgggcgccgagacccaggagggggucu
cuacuagagauccucugguaggggggcgcugugaugggguagaagguggg
ucgugagauccacuggacccgucacaggugcagaucccggcgguaguaac
agcgaaggggggugagaaucccccucgccggaagggcaaggguuucccgg
caacguucgucagccgggaguuagccgguccuaagguagggccuaauagg
uaccuaccgaaagggaaagggguuaacauuccccugccucccggguaggu
gcgguaacgcaagccagacuccugacggauugggguagggagaguaggac
caccguccuacccaagcacucaagcccuuggagagccguaacggugagaa
gagggcgaaggugugaugggccuuccguuaggaggguucuccugaucccu
aguccccaugaaaagggagucuggaacgaucccgggagaccguaccuaga
accgacacuggugccccggugagaagcccaaggcgucugagggguaaccc
aggcuagggaacucggcaaauuagccccguaacuucgggagaaggggugc
cuaucgugguuuaacaaagccacgauaggucgcagugaccagagggaccu
gacuguuuaauaaaaacauagguccccgcuagcccgaaaggguguguacg
ggggcuaaauccuggccacuggugguugguuaaauccggguucaaccggg
cgaagccccaccgaaggccggggguacccucuuaagguagccaaaugccu
ugccggguaaguuccggcgcgcaugaauggaucaacgcggucccuacugu
cccagccuggggccucgugaacgcccugagccggugcacaguccggcauc
ucccuacaccgagagaagaccccguggagcuucaccgcagccuggcguug
ucccucgggcguuuaugcguagaguaggugggaggggucgaaccuguccu
uucgggggcaggggacccgaaagugaaacaccacccauggacgcucgagg
gacuaaccucucgaaagagaggaacaacgucaggugggcgguucggcugg
ggcggcacucccgcgaaaagauaacacgggagcccaaaggucggcucagg
cgguacagaacgccgccguagagcgcaagggcaaaagccggccugacgug
acccuuccaaguacggggucacgacgcgaaagcggggccuagcgaacgcu
cgugcccccacacgugggggccgggcaugacagaaaaguuaccccgggga
uaacagggucgucgcgggcgagagcucacaucgaccccgcgguuugcuac
aucgaugucggcucuucccacccuggaggugcagcugccuccaaggguag
ggcugcccgcccguuaaaggggagcgugagcuggguuuagaccgucgcga
gacaggucggacucuaaggguagggagugcggaccgcuugaggggaagga
accccuaguacgagaggaacaggguuccggggccuccaguuuaccgguug
uccgguagggcaaugccgggcagccgcgcccugagggguaaccgcugaaa
gcaucuaagcgggaaccccuccccuaaaagaggcggucaggcgccggggc
cuuccccuagaagaggggguugaugggguggggauguaagcuccaagguu
guaagaccgaggaguuuaguccgccacucccaaucaggcuccccc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8hku Cryo-EM Structures and Translocation Mechanism of Crenarchaeota Ribosome
• Resolution: 2.72 Å
• Binding residue (original residue number in PDB): P2 F4 R8 R9 G18 L19 N20 N21 K23 F24 T37 R38 K42 K55 R56 G57 I58 S59 S60 R62 K64 R66 R71 K73 E75 R77 K78 H79 G80 R82 K83 G84 K85 S86 G87 A88 R89 T90 K93 W96 N98 R101 K102 R104 R105 Y106 R108 W109 R111 K118 H119 Y121 R122 Y125 R127 K129 G130 N135 L136 S137
• Binding residue (residue number reindexed from 1): P1 F3 R7 R8 G17 L18 N19 N20 K22 F23 T36 R37 K41 K54 R55 G56 I57 S58 S59 R61 K63 R65 R70 K72 E74 R76 K77 H78 G79 R81 K82 G83 K84 S85 G86 A87 R88 T89 K92 W95 N97 R100 K101 R103 R104 Y105 R107 W108 R110 K117 H118 Y120 R121 Y124 R126 K128 G129 N134 L135 S136

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• 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:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8hku, PDBe:8hku, PDBj:8hku
• PDBsum: 8hku
• PubMed: 37604686
• UniProt: O05639|RL19E_SULAC Large ribosomal subunit protein eL19 (Gene Name=rpl19e)