Structure of PDB 8g60 Chain LP Binding Site BS02

Receptor Information

>8g60 Chain LP (length=153) Species: 9606 (Homo sapiens)

VRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDV
TLQKQCVPFRRYNGGVGRCAQAKQWGWTQGRWPKKSAEFLLHMLKNAESN
AELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYMSSPCHIEMILT
EKE

Ligand information

>8g60 Chain L5 (length=3637)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcggguccggccgugucggcgc
ggcggaucuuucccggggggaccgucccccgaccggcgaccggccgccgc
cgggcgcauuuccaccgcggcggugcgccgcgaccggcuccgggacggcu
gggaaggcccggcggggaagguggcucgggggcccccgaguguuacagcc
cccccggcagcagcacucgccgaaucccggggccgagggagcgagacccg
ucgccgcgcucuccccccugggggggccgggccaccccucccacggcgcg
accgcucgggcggacuguccccagugcgccccgggcgggucgcgccgucg
ggcccggggggccacgcgcgcguccccggggacggcggagcgagcgcacg
gggucggcggcgacgucggcuacccacccgacccgucuugaaacacggac
caaggagucuaacacgugcgcgagucgggggcucgcacgaaagccgccgu
ggcgcaaugaaggugaaggccggcgcgcucgccggccgaggugggauccc
gaggccucuccaguccgccgagggcgcaccaccggcccgucucgcccgcc
gcgccggggagguggagcacgagcgcacguguuaggacccgaaagauggu
gaacuaugccugggcagggcgaagccagaggaaacucugguggagguccg
uagcgguccugacgugcaaaucggucguccgaccuggguauaggggcgaa
agacuaaucgaaccaucuaguagcugguucccuccgaaguuucccucagg
auagcuggcgcucucgcagacccgaacgcaguuuuauccgguaaagcgaa
ugauuagaggucuuggggccgaaacgaucucaaccuauucucaaacuuua
aauggguaagaagcccggcucgcuggcguggagccgggcguggaaugcga
gugccuagugggccacuuuugguaagcagaacuggcgcugcgggaugaac
cgaacgccggguuaaggcgcccgaugccgacgcucaucagaccccagaaa
agguguugguugauauagacagcaggacgguggccauggaagucggaauc
cgcuaaggaguguguaacaacucaccugccgaaucaacuagcccugaaaa
uggauggcgcuggagcgucgggcccauacccggccgucgccggcagucga
gaguggacgggagcgcgcggacgcuacgccgcgacgaguaggagggccgc
ugcggugagccuugaagccuagggcgcgggcccggguggagccgccgcag
gugcagaucuuggugguaguagcaaauauucaaacgagaacuuugaaggc
cgaaguggagaaggguuccaugugaacagcaguugaacaugggucagucg
guccugagagaugggcgagcgccguuccgaagggacgggcgauggccucc
guugcccucggccgaucgaaagggagucggguucagauccccgaauccgg
agcggagaugggcgccgcgaggcguccagugcgguaacgcgaccgauccc
ggagaagccggcgggagccccggggagaguucucuuuucuuugugaaggg
cagggcgcccuggaauggguucgccccgagagaggggcccgugccuugga
aagcgucgcgguuccggcggcguccggugagcucucgcuggcccuugaaa
auccgggggagaggguguaaaucucgcgccgggccguacccauauccgca
gcaggucuccaaggugaacagccucuggcauguuggaacaauguagguaa
gggaagucggcaagccggauccguaacuucgggauaaggauuggcucuaa
gggcuggguagcagccgacuuagaacuggugcggaccaggggaauccgac
uguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgcg
augugauuucugcccagugcucugaaugucaaagugaagaaauucaauga
agcgcggguaaacggcgggaguaacuaugacucucuuaagguagccaaau
gccucgucaucuaauuagugacgcgcaugaauggaugaacgagauuccca
cugucccuaccuacuauccagcgaaaccacagccaagggaacgggcuugg
cggaaucagcggggaaagaagacccuguugagcuugacucuagucuggca
cggugaagagacaugagagguguagaauaagugggaggcccgggccgccg
gugaaauaccacuacucugaucguuuuuucacugacccggugaggcgggg
gggcgagccccgaggggcucucgcuucuggcgccaagcgcccggcgccgg
gcgcgacccgcuccggggacagugccagguggggaguuugacuggggcgg
uacaccugucaaacgguaacgcagguguccuaaggcgagcucagggagga
cagaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauuu
ucaguacgaauacagaccgugaaagcggggccucacgauccuucugaccu
uuuggguuuuaagcaggaggugucagaaaaguuaccacagggauaacugg
cuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucgaug
ucggcucuuccuaucauugugaagcagaauucaccaagcguuggauuguu
cacccacuaauagggaacgugagcuggguuuagaccgucgugagacaggu
uaguuuuacccuacugaugauguguuguugccaugguaauccugcucagu
acgagaggaaccgcagguucagacauuugguguaugugcuuggcugagga
gccaauggggcgaagcuaccaucugugggauuaugacugaacgccucuaa
gucagaaucccgcccaggcggaacgauacggcagcgccgcggagccucgg
uuggccucggauagccggucccccgccgggguccggugcggagugcccuu
cguccugggaaacggggcgcggccggagaggcggccgcccccucgcccgu
cacgcaccgcacguucguggggaaccuggcgcuaaaccauucguagacga
ccugcuucugggucgggguuucguacguagcagagcagcucccucgcugc
gaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8g60 mRNA decoding in human is kinetically and structurally distinct from bacteria.
• Resolution: 2.54 Å
• Binding residue (original residue number in PDB): R3 Y4 K16 S17 R18 G19 R23 H25 F26 K27 R30 Q34 K37 K43 R62 Y63 N64 G65 G66 G68 R69 A71 Q72 K74 Q75 W78 Q80 R82 W83 P84 K85 K86 N97 S100 N101 L104 Q118 V119 K121 R127 T129 Y130 R131 A132 H133 G134 R135 I136 N137 P138 Y139 M140 S141
• Binding residue (residue number reindexed from 1): R2 Y3 K15 S16 R17 G18 R22 H24 F25 K26 R29 Q33 K36 K42 R61 Y62 N63 G64 G65 G67 R68 A70 Q71 K73 Q74 W77 Q79 R81 W82 P83 K84 K85 N96 S99 N100 L103 Q117 V118 K120 R126 T128 Y129 R130 A131 H132 G133 R134 I135 N136 P137 Y138 M139 S140

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8g60, PDBe:8g60, PDBj:8g60
• PDBsum: 8g60
• PubMed: 37020024
• UniProt: P18621|RL17_HUMAN Large ribosomal subunit protein uL22 (Gene Name=RPL17)