Structure of PDB 8hkv Chain L15E Binding Site BS01

Receptor Information

>8hkv Chain L15E (length=169) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

SMYHYIEQTWQNKDWRRSILRKRLIEWRRQPAITRIDRPTRLNRARALGY
KAKQGFVMVRVRVRRGGLNKPRPNSGRRPKRMGVYGYGPSKGYRWIAEER
AARKFPNLEVLGSYYVAEDGMYKYYEVIMVDYSHPVIRSDPELKWLQDSV
NRKRVFRGLTSAGQKSRGL

Ligand information

>8hkv Chain A23S (length=2989)

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
acugagauccucugguaggggggcgcugugaugggguagaaggugggucg
ugagauccacuggacccgucacaggugcagaucccggcgguaguaacagc
gaaggggggugagaaucccccucgccggaagggcaaggguuucccggcaa
cguucgucagccgggaguuagcguccuaagguagggccuaauagguaccu
accgaaagggaaagggguuaacauuccccugccucccggguaggugcggu
aacgcaagccagacuccugacggauugggguagggagaguaggaccaccg
uccuacccaagcacucaagcccuuggagagccguaacggugagaagaggg
cgaaggugugaugggccuuccguuaggaggguucuccugaucccuagucc
ccaugaaaagggagucuggaacgaucccgggagaccguaccuagaaccga
cacuggugcccgggugagaagcccaaggcgucugagggguaacccaggcu
agggaacucggcaaauuagccccguaacuucgggagaaggggugccuauc
gugguuuaacaaagccacgauaggucgcagugaccagagggaccugacug
uuuaauaaaaacauagguccccgcuagcccgaaaggguguguacgggggc
uaaauccugccacuggugguugguuaaauccggguucaaccgggcgaagc
cccaccgaaggccggggguacccucuuaagguagccaaaugccuugccgg
guaaguuccggcgcgcaugaauggaucaacgcggucccuacugucccagc
cuggggccucgugaacgcccugagccggugcacaguccggcaucucccua
caccgagagaagaccccguggagcuucaccgcagccuggcguugucccuc
gggcguuuaugcguagaguaggugggaggggucgaaccuguccuuucggg
ggcaggggacccgaaagugaaacaccacccauggacgcucgagggacuaa
ccucucgaaagagaggaacaacgucaggugggcgguucggcuggggcggc
acucccgcgaaaagauaacacgggagcccaaaggucggcucaggcgguac
agaacgccgccguagagcgcaagggcaaaagccggccugacgugacccuu
ccaaguacggggucacgacgcgaaagcggggccuagcgaacgcucgugcc
cccacacgugggggccgggcaugacagaaaaguuaccccggggauaacag
ggucgucgcgggcgagagcucacaucgaccccgcgguuugcuacaucgau
gucggcucuucccacccuggaggugcagcugccuccaaggguagggcugc
ccgcccguuaaaggggagcgugagcuggguuuagaccgucgcgagacagg
ucggacucuaaggguagggagugcggaccgcuugaggggaaggaaccccu
aguacgagaggaacaggguuccggggccuccaguuuaccgguuguccggu
agggcaaugccgggcagccgcgcccugagggguaaccgcugaaagcaucu
aagcgggaaccccuccccuaaaagaggcggucaggcgccggggccuuccc
cuagaagaggggguugaugggguggggauguaagcuccaagguuguaaga
ccgaggaguuuaguccgccacucccaaucaggcuccccc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8hkv Cryo-EM Structures and Translocation Mechanism of Crenarchaeota Ribosome
• Resolution: 4.94 Å
• Binding residue (original residue number in PDB): S4 Y6 Q14 N15 I28 R31 R38 R41 L45 R47 R49 L51 K54 K56 Q57 R67 R68 G69 G70 L71 N72 K73 R75 S78 G79 R80 R81 P82 K83 R84 M85 G86 V87 Y88 G89 S93 K94 G95 I99 E102 R103 R106 K107 F108 P109 N110 L111 Y118 G123 K126 D134 Y135 V139 E145 K147 K156 R157 R160 S164 Q167 K168 R170
• Binding residue (residue number reindexed from 1): S1 Y3 Q11 N12 I25 R28 R35 R38 L42 R44 R46 L48 K51 K53 Q54 R64 R65 G66 G67 L68 N69 K70 R72 S75 G76 R77 R78 P79 K80 R81 M82 G83 V84 Y85 G86 S90 K91 G92 I96 E99 R100 R103 K104 F105 P106 N107 L108 Y115 G120 K123 D131 Y132 V136 E142 K144 K153 R154 R157 S161 Q164 K165 R167

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome

External links

• PDB: RCSB:8hkv, PDBe:8hkv, PDBj:8hkv
• PDBsum: 8hkv
• PubMed: 37604686
• UniProt: Q4JB20|RL15E_SULAC Large ribosomal subunit protein eL15 (Gene Name=rpl15e)