Structure of PDB 8hkz Chain AL5P Binding Site BS01

Receptor Information
>8hkz Chain AL5P (length=168) Species: 330779 (Sulfolobus acidocaldarius DSM 639) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KENVMRRVVLDKVTVNIGVGESGERLQKAYQLVQELTGVKPVYTKGRKSI
REFGVRKGAPIGVKATLRRQAAVEFLKKVLPAVNFRLKQSSFDNYGNVSF
GIAEHVLIPGTRYDPEIGIFGMDVAITLVRPGYRTMKRKRKKASIPRRHR
VTKEEAINFMKENFNVTI
Ligand information
>8hkz Chain A23S (length=2996) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aagccucccgguggauggcucggcucgggcaccgaagaagggcgcggcaa
gcagcgaaaugcucgggugaggcgcaagcagccguugaccccgagguccc
cuaaugggauauccugccggguuuccggcgcccgguuuauaacugggugg
gaaccccccgaacggaaacaucuuaguagggggaggaaaagaaaucaauu
gagauccccugaguaggggcgaccgaaagggggacagcccaaacuaaacc
ugccgaugauaagucgguggggaugugguguuacgaccucuagccugagg
uugaccucggcuuuccuaaccuaucuagccgaacuccccuggaacggggg
gccauagagggugaaagccccguaggcuaaagauagguggaaaguggcua
gagguagaguaccauccccugguuugggggugggaaguuaggggacacgu
gccucuaaggcuaaauaugucccgagaccgauagcaaacuaaguaccgug
agggaaagcugaaaagaaccccggaagggggagugcaaagagccugaaac
cgggugguuauacaggguguggcucgaaagaagugaacccuuccgaagga
aaggggcgcaagcccuuaguacgaggaagggcgaucggggucacgccuuu
cgucuugaaacacgggccggggaguucacaucaguggcgagcuuaaggag
auuaucuccgaaggcauagggaaaccaagugcccgcagccuaguuucuag
gcgaggggcagggucugucagggccugaagccacugaugugaggcuagaa
accgggcgaucuaguccggggcaggcugaaggugggggaaaccccacugg
agggccgaauagggguucugacgugcaauucguucccuugaccucggacu
aggggcaaaagaccaaucuagcccggugauagcuaguuccccccgaaaug
cguccuagcgcagccucccuaaaggcagcucgcgggguagagugacagau
cgggggcuccaggcgccuggggcuuccggucuaacuccgaacccacgagc
gccgaagaaggggggagugggucacucggcguaagguuggguggcaaaag
gggaacaacccagaccuggguuaaggccccaaagucccggcuaagugcca
acgaaaaggcgucuccagccuuagacagcgggaaggugggcccagcagca
gccauccucuaaggagugcguaacagcucacccgccgaggcuggaggccc
uaaagauuggucggggcucaagccgggcgccgagacccaggagggggucu
cuacugagauccucugguaggggggcgcugugaugggguagaaggugggu
cgugagauccacuggacccgucacaggugcagaucccggcgguaguaaca
gcgaaggggggugagaaucccccucgccggaagggcaaggguuucccggc
aacguucgucagccgggaguuagccgccuaagguagggccuaauagguac
cuaccgaaagggaaagggguuaacauuccccugccucccggguaggugcg
guaacgcaagccagacuccugacggauugggguagggagaguaggaccac
cguccuacccaagcacucaagcccuuggagagccguaacggugagaagag
ggcgaaggugugaugggccuuccguuaggaggguucuccugaucccuagu
ccccaugaaaagggagucuggaacgaucccgggagaccguaccuagaacc
gacacuggugcccgggugagaagcccaaggcgucugagggguaacccagg
cuagggaacucggcaaauuagccccguaacuucgggagaaggggugccua
ucgugguuuaacaaagccacgauaggucgcagugaccagagggaccugac
uguuuaauaaaaacauagguccccgcuagcccgaaaggguguguacgggg
gcuaaauccuggccacuggugguugaaauccggguucaaccgggcgaagc
cccaccgaaggccggggguaacucugacccucuuaagguagccaaaugcc
uugccggguaaguuccggcgcgcaugaauggaucaacgcggucccuacug
ucccagccuggggccucgugaacgcccugagccggugcacaguccggcau
cucccuacaccgagagaagaccccguggagcuucaccgcagccuggcguu
gucccucgggcguuuaugcguagaguaggugggaggggucgaaccugucc
uuucgggggcaggggacccgaaagugaaacaccacccauggacgcucgag
ggacuaaccucucgaaagagaggaacaacgucaggugggcgguucggcug
gggcggcacucccgcgaaaagauaacacgggagcccaaaggucggcucag
gcgguacagaacgccgccguagagcgcaagggcaaaagccggccugacgu
gacccuuccaaguacggggucacgacgcgaaagcggggccuagcgaacgc
ucgugcccccacacgugggggccgggcaugacagaaaaguuaccccgggg
auaacagggucgucgcgggcgagagcucacaucgaccccgcgguuugcua
caucgaugucggcucuucccacccuggaggugcagcugccuccaagggua
gggcugcccgcccguuaaaggggagcgugagcuggguuuagaccgucgcg
agacaggucggacucuaaggguagggagugcggaccgcuugaggggaagg
aaccccuaguacgagaggaacaggguuccggggccuccaguuuaccgguu
guccgguagggcaaugccgggcagccgcgcccugagggguaaccgcugaa
agcaucuaagcgggaaccccuccccuaaaagaggcggucaggcgccgggg
ccuuccccuagaagaggggguugaugggguggggauguaagcuccaaggu
uguaagaccgaggaguuuaguccgccacucccaaucaggcuccccc
..<<<.<<<<<<.....<<..<<<<<<<<<<<<.....<<<<<<<.((..
((.>>>.....<<<<<<...<<<))..)).>>>......>>>>>>...>>
>>...<<<....>>><<<<<....>>>>><<<<<<<.....>>>>>>>>>
...<<<<<<....<<<....>>>.....>>>>>.>.........<<....
>>..<<<<<<.....<<.....>>....>>>>>>..[.....<<<...<<
<<<<<<<.....>>>>>>>>>.....>>>......<<<<<<<<<<<<<<<
<..>>>>>><<<<<<<..<<<<<<<<.<<<.....<<<<......>>>>.
((......<<<.....))>>>...>>>...>>>>>>>>>>>>>>>>>>>>
>>>>>......<<<<<<<<......>>>>>>>>......<<<<<.<<<<<
<>>>>>....]......>>.>>>>>>.>>................<<...
.>>....>>.........<<<<.....>>>>.................>>
>>>>.>>>.......<<<<<<<<<<....<<......<<<<<<<...<..
..<<<<<....>>>>>.....>..>>>>>>>...>>.>>>>>>>>>>..<
<<..........>>><<<<<<....<<<<<<<<<<<<<..<<<...<<<<
<...>>>>>...>>>...<<....>>...<<<<<...<<<<.......>>
>>...>>>>><<<<<<....>>>>>>...>>>>>>>>>>>>>..<<<<..
.<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>..
...>>>....<<<<<....<<........>>..>>>>>...>>>>>>>>>
...<<.......>>......>>>>>>......>>>>..<<<<<<....<<
<<<....>>>>><<<<<<<<...<<<.<<<<<.<<<...<<<......<.
<<<<<<<<<<<<<<>>>>>>>>>>>>>>.>....>>.>...>>>.>>>>>
>>>......>>>>>>.>>..<<<<<.<<<<.....>>>>.>>>>>....<
<<......>>>...<<<<<<<...<<<(((.....<<<<<<.....<<..
......<<<.<<<<<<<<<<.......<<<<<.<<....<..........
..>...>>.........<<......>>...>>>>>...>>>>>>>>>>>>
>...........)))>>....>>>>>>.>>>...>>>>>>><<<<<<<<<
......>>>>>>>>>....>>>>>><<<<<<<<<.<<<.....<<<<<<<
<....>>>>>>>>...>>>>>>>>>>.>>.....>>>>>><......<<.
.....<<<<<<.......>>>>>><<<<....<<<<<.<<...<<<<<<.
...<.....>..>>>>>>....<<.(<<...<<<<<<<<<.....>>>.>
>>>>>....>>...<<<<<........>>>>>>><<<<<<<<.....<<<
....>>>...<<<<<<<<<<...<<<<<<<<<..<<<<<<<<<<<<....
..>>>>>><<..<<<<<...<<<<<<.....<<<<...>>>>.....>>>
>>>...>>>>>...>><<<<<<<....>>>>>>>>>>>>>...>>>>>>>
>>.........>>>>>>>>>>......>>>>>>>>.)....>>.....<<
......>>>>>>><<<.......>>>..>>>>...<<<<.....<<<<<<
<<.<<...............<<<<<....<<..>>.....>>>>><<<<<
<<<<<<<<......>>>>>>>>>>>>>............<<<<<<<<<..
<<<.........>>>..<<<<<<<....<<<<....>>>>......>>>>
>>>..<<<<.<<<..<<<<<<<......<<<<<......>>>>>......
.>>>>>..>>>>>.<<<<.........>>>>.........<.........
..<<<<<<.....>>>>>>.....>....>>>>...>>.>>>>>>>....
.>>.>>>>>>>>.>>>>>>.....>.....<<<<<........>>>>>..
<<<<<<<<.[[..[[......<<<<.[[<<<<..<<<<<.<<<<<<<<<.
<<<<<<<<<<<<<<<<.<.........<<.<<....<.........<.<<
.......>>>......>..............>>.>>>.>>>>>>>>>>>>
>>>>...<<<<<<....>>>>>>....>>>>>>>>>..>>>>>...<<<.
....>>>..<<<<<.............>>>>>..<<...<<<<<<<...<
<<<<<.......>>>>>>.....<<...(((>>....>>>>>>>...<<<
<<<<<<.........>>>>>>>>>.<<<....>>>.>>))).......<<
<<<.<<<<<..>>>>>>>>>>>>>>>>..........>>>>..]]>>>>.
......<<<<..<<<<<<<...<<.......>>...>>>>>>>...>>>.
>........<<<<..<<<<<..<<<<<<<<<......>>>>>>>..>>..
<<<<.....>>>>......>>>>>......>>>.>.....<<<<<<<...
.>>>.>>>>....]]...]]>>>>>>>>....<<<<<<<..<<<<<..<<
<<<<<.................>>>>>>><<<<<...<.<<...<<<<<<
<<<<....>>>>>..>>>>>...>>.>.>>>>>.<<<<<...<<<<<...
........>>>>>...>>>>>>>>>>......>>>>>>>.<<<>>><<<<
<<<<<<<<.......>>>>>....<<<<<<<<<<<<....<<<<<..<<<
<....>>>>..>>>>>...>>>>.>>>>>.>>>...>>>>>>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8hkz Cryo-electron microscopy structure and translocation mechanism of the crenarchaeal ribosome.
Resolution4.78 Å
Binding residue
(original residue number in PDB)
N23 G25 V26 G27 T51 G53 R54 I57 F60 V62 K71 S97 S98 F99 D100 Y102 N104 S106 G108 A110 G128 D130 R157
Binding residue
(residue number reindexed from 1)
N16 G18 V19 G20 T44 G46 R47 I50 F53 V55 K64 S90 S91 F92 D93 Y95 N97 S99 G101 A103 G121 D123 R150
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8hkz, PDBe:8hkz, PDBj:8hkz
PDBsum8hkz
PubMed37604686
UniProtP41202|RL5_SULAC Large ribosomal subunit protein uL5 (Gene Name=rpl5)

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