Structure of PDB 8d8k Chain 2 Binding Site BS01

Receptor Information

>8d8k Chain 2 (length=99) Species: 4932 (Saccharomyces cerevisiae)

TIPKPSDQVPDVDAFLNKIGRNCNELKDTFENNWNNLFQWDSKILKEKGV
NIQQRKYILKQVHNYRNNRPIHEIKLGKKSFFGGERKRKAFTAKWKAEN

Ligand information

>8d8k Chain a (length=1538)

uuuuauauauauauaauaaggaaaaguauuuauaagaauaugauguuggu
ucagauuaagcgcuaaauaaggacaugacacaugcgaaucauacguuuau
uauugagauaauaaauaugugguguaaacgugaguaauuuuauuaggaau
uaaugaacuauagaauaagcuaaauacuuaauauuauauaaaaauaauuu
auauaauaaaaaggauauauauauauauauuuaucuauagucaagccaau
aaugguuuagguaguagguuuauuaagaguuaaaccuagccaacgaucca
uaaucgauaaugaaaguuagaacgaucacguugacucugaaauauaguca
auaucuauaagauacagcagugaggaauauuggacaaugaucgaaagauu
gauccaguuacuuauuaggaugauauauauauauauauaaauugauuaaa
aauaaaauccauaaauaauuaaaauaaugauauuaauuaccauauauuua
uauggauauauauauauuuuaauaguccugacuaauauuugugccagcag
ucgcgguaacacaaagagggcgagcguuaaucauaaugguuuaaaggauc
cguagaaugaauuauauauaauuuagaguuaauaaaauauaauuaaagaa
uuauaauaguaaagaugaaauaauaauaauaauuauaagacuaauauaug
ugaaaauauuaauuaaauauuaacugacauugagggauuaaaacuagagu
agcgaaacggauucgauacccguguaguucuaguaguaaacuaugaauac
aauuauuuauaauauauauauaaauaauaaaugaaaaugaaaguauucca
ccugaagaguacguuagcaauaaugaaacucaaaacaauagacgguuaca
gacuuaagcaguggagcauguuauuuaauucgauaauccacgacuaaccu
uaccauauuuugaauauuauaauaauuauaauuauuauauuacaggcguu
acauuguugucuuuaguucgugcugcaaaguuuuagauuaaguucauaaa
cgaacaaaacuccauauauauaauuuuaauuauauauaauuuuauauuau
uuauuaauauaaagaaaggaauuaagacaaaucauaaugauccuuauaau
auggguaauagacgugcuauaauaaaaugauaauaaaauuauauaaaaua
uauuuaauuauauuuaauuaauaauauaaaacauuuuaauuuuuaauaua
uuuuuuuauuauaauaugaauuauaaucugaaauucgauuauaugaaaaa
agaauugcuaguaauacguaaauuaguauguuacggugaauauucuaacu
guuucgcacuaaucacucaucacgcguugaaacauauuauuaucuuauua
uuuauauaauauuuuuuaauaaauauuauuaauuuauauuuauuuauauc
agaaauaauaugaauuaaugcgaaguugaaauacaguuaccguaggggaa
ccugcggugggcuuauaaauaucuuaaauauucuuaca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8d8k Principles of mitoribosomal small subunit assembly in eukaryotes.
• Resolution: 3.13 Å
• Binding residue (original residue number in PDB): R50 S71 K75 I81 Q82 R84 K85 H92 I103 K104 G106 K108 F110 F111 G113 E114 R115 K118 A122 E127
• Binding residue (residue number reindexed from 1): R21 S42 K46 I52 Q53 R55 K56 H63 I74 K75 G77 K79 F81 F82 G84 E85 R86 K89 A93 E98

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005763 mitochondrial small ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8d8k, PDBe:8d8k, PDBj:8d8k
• PDBsum: 8d8k
• PubMed: 36482135
• UniProt: P38783|FYV4_YEAST Small ribosomal subunit protein mS41 (Gene Name=FYV4)