Structure of PDB 8jdl Chain 2 Binding Site BS01

Receptor Information
>8jdl Chain 2 (length=187) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KLFGKWSTDDVQINDISLQDYIAVKEKYAKYLPHSAGRYAAKRFRKAQCP
IVERLTNSMMMHGRNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAII
NSGPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIK
TIAECLADELINAAKGSSNSYAIKKKDELERVAKSNR
Ligand information
>8jdl Chain w (length=1634) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacgacagugaaacugcgaauggcucauuaaauc
aguuaugguuccuuuggucgcucgacuuggauaacugugguaauucuaga
gcuaauacaugccgacgggcgcugacccccuucgcgggggggaugcgugc
auuuaucagauggugacucuagauaaccgccgaucgcacgcgcggcgacg
acccauucgaacgucugcccuaucaacuuucgaugguagucgccgugccu
accauggugaccacgggugacggggaaucaggguucgauuccggagaggg
agccugagaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauu
acccacucccgacccggggagguagugacgaaaaauaacaauacaggccc
uguaauuggaaugaguccacuuuaaauccuuccgcgaggauccauuggag
ggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguaua
uuaaaguugcugcaguuaaaaagcucguaguuggaucuuuuacuuugaaa
aaauuagaguguucaaagcaggcccgagccgccuggauaccgcagcuagg
aauaauggaauaggaccgcgguucuauuuuguugguuuucggaacugagg
ccaugauuaagagggacggccgggggcauucguauugcgccgcuagaggu
gaaauucuuggaccggcgcaagacggaccagagcgaaagcauuugccaag
aauguuuucauuaaucaagaacgaaagucggagguucgaagacgaucaga
uaccgucguaguuccgaccauaaacgaugccgacuggcgaugcggcggcg
uuauucccaugacccgccgggcagcuuccgggaaaccaaagucuuugggu
uccggggggaguaugguugcaaagcugaaacuuaaaggaauugacggaag
ggcaccaccaggaguggagccugcggcuuaauuugacucaacacgggaaa
ccucacccggcccggacacggacaggauugacagauugauagcucuuucu
cgauuccgugggugguggugcauggccguucuuaguugguggagcgauuu
gucugguuaauuccgauaacgaacgagacucuggcaugcuaacuaguuac
gcgacccgcggucggcgucccccaacuucuuagagggacaaguggcguuc
agccacccgagauugagcaauaacaggucugugaugcccuuagauguccg
gggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuacgc
cggcaggcgcggguaacccguugaaccccauucgugauggggaucgggga
uugcaauuauuccccaugaacgaggaauucccaguaagugcgggucauaa
gcuugcguugauuaagucccugcccuuuguacacaccgcccgucgcuacu
accgauuggaugguuuagugaggcccucggaucggccccgcgcggagcgc
ugagaagacggucgaacuugacuaucuagaggaaguaaaagucguaacaa
gguuuccguaggugaaccugcggaaggaucauua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<....>>...>>.>>......<<........<
<<.<....<<....<<<<<........<<.....<<.<<.......>>.>
>......>>.........<<<<...<<<<........>>>>...>>>><<
..<<<<<....<......>..>>>>>..>>...<<<<.<<..>>>>>>.>
>.>>>...>>..>.>>>.<<<....<<<....<<<<<<<.........>>
>>>>>>>>......>>>...<<<.<<<<....>>>>....>>>.>>.<<.
<<<..........>>>.>>.<.<<....>>.>...>>>>>>.........
<<<....<<.......>>..>>>..>...>>.>.....<<.<<<.<..>.
.>>>..>>......<<..<...........>..>>........<<<<<<(
(......<<<<.....<<..))>>.......>>>>.>>>>>>.>>>>>>.
>>>.........<.<((.....<.<<...<<<.<<....<<<<<<.<...
....<<...<.......>.<<<<.......>>>>...>>......>.>>>
..>>>........<.<<.<<<<.<<...............>>.>>>>.>>
.>....>>....<<<<<<..<...<<<<..<<..<<<<<<<<...<<<..
....>>>......>>>>>>>>..>>.......<<....>>...>>>>..>
..>>>.>>>...>>>...>>.>....<<<<<<<...<...<<<<.<....
.>.>>>>...>>>>>>>>..........<<<.<<.<<<..<.<<<<<<.<
<<<<....>>>>>>>>>>>.>..>>>...<<..))>>...>>.....>>>
.>.>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<
<<<<..<<..<<<<<..<<<.<<<<<<......<<........>>.....
.....<<<<<.<....<<<<<<.......<<.<<<........>>>.>>.
....>>>>>>.<.<<.<<<..<<.<<<<<<....<<<.<<<<<....>>>
...<<<......>>>...>>.>>>....<<<...<...<<<<..<<<<<<
<<<<<<...>>>>.>>>>.....>>>>..>>>>..>.....<<<<<....
.>>>>>........>>>....>>>.>>>.....>>>>>>>>....>.>>>
>>...>>.>>>>.>>>.....<<.<<<........<.......<<<.<<<
<....>>>>.>>>....>.........>>>.>>......<.....<<<<<
..........>>>>>.....>.....>>>>>.....<<<<<<<<......
.>>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<<
.<<....<<<<<<<<.<<<..<<<<.<<...<<<<<.<.<..>.>...>>
>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>...>.>>...>..
...<<<<<<<<<<..>>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8jdl Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
Resolution2.42 Å
Binding residue
(original residue number in PDB)		H51 R60 K63 R71 N74 M77 M78 H79 R81 N83 G84 L87 M88 I92 R145 N148 F163 R164 N165 I166 T168 I169
Binding residue
(residue number reindexed from 1)		H34 R43 K46 R54 N57 M60 M61 H62 R64 N66 G67 L70 M71 I75 R128 N131 F146 R147 N148 I149 T151 I152
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
Biological Process
GO:0000028 ribosomal small subunit assembly
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0006413 translational initiation
GO:0006450 regulation of translational fidelity
GO:0042274 ribosomal small subunit biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0015935 small ribosomal subunit
GO:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0032040 small-subunit processome
GO:0045202 synapse
GO:0070062 extracellular exosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8jdl, PDBe:8jdl, PDBj:8jdl
PDBsum8jdl
PubMed37992713
UniProtP46782|RS5_HUMAN Small ribosomal subunit protein uS7 (Gene Name=RPS5)

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