Structure of PDB 6xu8 Chain CQ Binding Site BS01

Receptor Information

>6xu8 Chain CQ (length=187) Species: 7227 (Drosophila melanogaster)

GIDINHKYDRKVRRTEPKSQDVYLRLLVKLYRFLQRRTNKKFNRIILKRL
FMSKINRPPLSLQRIARFFKAANQPESTIVVVGTVTDDARLLVVPKLTVC
ALHVTQTARERILKAGGEVLTFDQLALRSPTGKNTLLLQGRRTARTACKH
FGKAPGVPHSHTRPYVRSKGRKFERARGRRSSCGYKK

Ligand information

>6xu8 Chain A5 (length=3703)

uuauauacaaccucaacucauaugggacuacccccugaauuuaagcauau
uaauuaggggaggaaaagaaacuaacaaggauuuucuuaguagcggcgag
cgaaaagaaaacaguucagcacuaagucacuuugucuauauggcaaaugu
gagaugcaguguauggagcgucaauauucuaguaugagaaauuaacgauu
uaaguccuucuuaaaugaggccauuuacccauagagggugccaggcccgu
auaacguuaaugauuacuagaugauguuuccaaagagucguguugcuuga
uagugcagcacuaagugggugguaaacuccaucuaaaacuaaauauaacc
augagaccgauaguaaacaaguaccgugagggaaaguugaaaagaacucu
gaauagagaguuaaacaguacgugaaacugcuuagagguuaagcccgaug
aaccugaauauccguuauggaaaauucaucauuaaaauuguaauauuuaa
auaauauuaugagaauagugugcauuuuuuccauauaaggacauuguaau
cuauuagcauauaccaaauuuaucauaaaauauaacuuauaguuuauucc
aauuaaauugcuugcauuuuaacacagaauaaauguuauuaauuugauaa
agugcugauagauuuauaugauuacagugcguuaauuuuucggaauuaua
uaauggcauaauuaucauugauuuuuguguuuauuauaugcacuuguaug
auuaacaaugcgaaagauucaggauaccuucgggacccgucuugaaacac
ggaccaaggagucuaacauaugugcaaguuauugggauauaaaccuaaua
gcguaauuaacuugacuaauaaugggauuaguuuuuuagcuauuuauagc
uaauuaacacaaucccggggcguucuauauaguuauguauaauguauauu
uauauuauuuaugccucuaacuggaacguaccuugagcauauaugcugug
acccgaaagauggugaacuauacuugaucagguugaagucaggggaaacc
cugauggaagaccgaaacaguucugacgugcaaaucgauugucagaauug
aguauaggggcgaaagaccaaucgaaccaucuaguagcugguuccuuccg
aaguuucccucaggauagcuggugcauauauuauauaaaauaaucuuauc
ugguaaagcgaaugauuagaggccuuagggucgaaacgaucuuaaccuau
ucucaaacuuuaaauggguaagaaccuuaacuuucuugauaugaagauca
agguuaugauauaaaugucccagugggccacuuuugguaagcagaacugg
cgcugugggaugaaccaaacguaauguuacgugcccaaauuaacaacuca
ugcagauaccaugaaaggcguugguugcuuaaaacagcaggacggugauc
auggaagucgaaauccgcuaaggaguguguaacaacucaccugccgaagc
aacuagcccuuaaaauggauggcgcuuaaguuguauaccuauacauuacc
gcuaaaguagaugauuuauauuacuugugauauaaauuuugaaacuuuag
ugaguaggaagguacaaugguaugcguagaaguguuuggcguaagccugc
auggagcugccauugguacagaucuugguggauaguagcaaauaaucgaa
ugagagccuuggaggacugaaguggagaaggguuucgugugaacaguggu
ugaucacgaguuagucgguccuaaguucaaggcgaaagcgaaaauuuuca
aguaaaacauaauuuugaacgaaagggaauacgguuccaauuccguaacc
uguugaguauccguuuguuauuaaauaugggccucgugcucauccuggca
acaggaacgaccauaaagaagccgucgagagauaucggaagaguuuucuu
uucuguuuuauagccguacuaccauggaagucuuucgcagagagauaugg
uagaugggcuagaagagcaugacauauacuguugugucgauauuuucucc
ucggaccuugaaaauuuaugguggggacacgcaaacuucucaacaggccg
uaccaauauccgcagcuggucuccaaggugaagagucucuagucgauaga
auaauguagguaagggaagucggcaaauuagauccguaacuucgggauaa
ggauuggcucugaagauugagauagucggccuugauugggaaacuggaac
uuucuugcuaaauuauaacgauuaucaauuaacaaucaauucagaacugg
cacggacuuggggaauccgacugucuaauuaaaacaaagcauugugaugg
cccuagcggguguugacacaaugugauuucugcccagugcucugaauguc
aaagugaagaaauucaaguaagcgcgggucaacggcgggaguaacuauga
cucucuuaagguagccaaaugccucgucaucuaauuagugacgcgcauga
auggauuaacgagauuccuacugucccuaucuacuaucuagcgaaaccac
agccaagggaacgggcuuggaauaauuagcggggaaagaagacccuuuug
agcuugacucuaaucuggcaguguaaggagacauaagagguguagaauaa
gugggagauauuagaccucgguuugguaucgucaaugaaauaccacuacu
cuuauuguuuccuuacuuacuugauuaaauggaacguguaucauuuccua
gauuggguuuugaugcaagcuucuugaucaaaguaucacgaguuuguuau
auaaucgcaaacaaauuugguauaacuccaauuacucagguaugauccaa
uucaaggacauugccagguagggaguuugacuggggcgguacaucucuca
aauaauaacggaggugucccaaggccagcucagugcggacagaaaccaca
cauagagcaaaagggcaaaugcugacuugaucucgguguucaguacacac
agggacagcaaaagcucggccuaucgauccuuuugguuuaaagaguuuuu
aacaagaggugucagaaaaguuaccauagggauaacuggcuuguggcggc
caagcguucauagcgacgucgcuuuuugauccuucgaugucggcucuucc
uaucauugugaagcaaaauucaccaagcguuggauuguucacccaugcaa
gggaacgugagcuggguuuagaccgucgugagacagguuaguuuuacccu
acuaaugacaaaacguuguugcgacagcauuccugcguaguacgagagga
acccgcagguacggaccaauggcacaauacuuguucgagcgaacaguggu
augacgcuacguccguuggauuaugccugaacgccucuaaggucguaucc
gugcuggacugcaaugauaaauaaggggcaauuugcauuguauggcuucu
aaaccauuuaaaguuuauaauuuacuuuauaaacgacaauggaugugaug
ccaauguaauuuguaacauaguaaauugggaggaucuucgaucaccugau
gccgcgcuaguuacauauaaaagcauuauuuaauacaaugacaaagccua
gaaucaauuguaaacgacuuuuguaacaggcaagguguuguaagugguug
agcagcugccauacugcgauccacugaagcuuauccuuugcuugaugauu
cga

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>>...>>>>>>>>>>........>>>>>><<......<<......<<.<<
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>>..>>>>>....((<<<<<<...<<<<...<<....>>..........<
............>...>>>>....>>>..<<<<<........>>>>>))<
<<<<<<<.....................<<........>>....<<<...
.>>>......<<<<<<<....<<<..<<<<<...<.<<.<<<<..{{{..
>>>>.><...<<<<<...<<<<<<<<....<<<.....>>>....>>>>>
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..>>.....<<......>>>>>>>.<<<<.....>>>>.>>>>>..<<<<
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..........<<<<<<<<<..<<<.........>>>..<<<<<<<....<
<<<....>>>>......>>>>>>>...<<..<<<..<<<<<<....<<<.
..<.<<<<....>>>>..>..>>>.>>>>..>>>>><<<<<<.......>
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...>>....>>.>>>>>>>.....>>.>>>>>>>..>>>>>>....>>..
..<<<<<........>>>>>....[[[[[..{{{.........{{{..{{
[[[[..<<<<<.<<<<<<<<..<<<<<<....<..<<<............
.<<<....<<<<<<<<....>>>>>>>>..............>>>....>
>>..>.....>>>>>>...<<<<<.....<<<<...<<<<.....<....
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......................................>>>>>..>>>>.
.>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>..<<<<<<..
.........>>>>>>..<<...<<.<<<<...<<<.<<.......>>.>>
>.....<<...(((>>....>>>>.>>...<<<<.<<<<.......>>>>
.>>>>.<.<....>.>.>>))).......((((((..((((.>>>>>>))
))))))))..........]]]]..}}.}}}.......<<.<...<<<<<<
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>>>>>.>...>>>.>>....<<<<<<<....>>>.>>>>........}}}
.]]]]]........<<<<<<<<..<<<<.<.<<<<<<.............
...>>>>>>.><<<<<....<<<...<<<<<<<<<.}}}..>>>>..>>>
>>...>>>..>>>>>.<<<<....<<<<...........>>>>....>>>
>.>>>>....>>>>>>>>.......<<<<....<<<<<<<<.........
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<<<<<<<.............>>....<<<<<<<<<.<<<....<<<<...
.<..............>...>>>>...>>>....>>>>.>>>>>..>>>>
>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6xu8 Ribosome heterogeneity in Drosophila melanogaster gonads through paralog-switching.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): G2 H7 D10 R11 K12 V13 R14 R15 K19 S20 K30 R37 R38 N40 K42 R45 K49 M53 S54 K55 N57 P60 S62 Q64 R65 R68 F69 A72 N74 Q75 T85 T87 D88 D89 R91 H104 T106 G133 K134 N135 T136 Q140 G141 R142 R143 T144 R146 T147 F152 H162 V167 R168 S169 K173 F174 R176 R180 R181 S183 C184 G185 Y186
• Binding residue (residue number reindexed from 1): G1 H6 D9 R10 K11 V12 R13 R14 K18 S19 K29 R36 R37 N39 K41 R44 K48 M52 S53 K54 N56 P59 S61 Q63 R64 R67 F68 A71 N73 Q74 T84 T86 D87 D88 R90 H103 T105 G132 K133 N134 T135 Q139 G140 R141 R142 T143 R145 T146 F151 H161 V166 R167 S168 K172 F173 R175 R179 R180 S182 C183 G184 Y185

Gene Ontology

Molecular Function

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

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6xu8, PDBe:6xu8, PDBj:6xu8
• PDBsum: 6xu8
• PubMed: 34283226
• UniProt: Q9VS34|RL18_DROME Large ribosomal subunit protein eL18 (Gene Name=RpL18)