Structure of PDB 8d8j Chain O Binding Site BS01

Receptor Information

>8d8j Chain O (length=210) Species: 4932 (Saccharomyces cerevisiae)

SAKAVKFLKAQRRKQKNEAKQATLKASTDKVDPVLGRADTPFITRIMAEL
KEPLVLSKGYNIEEVDKFLAAIESAKREDIEKLEDRREAILRILSMRNSE
NKNAIKMAVELARKEFERFPGDTGSSEVQAACMTVRIQNMANHIKEHRKD
FANTRNLRILVQQRQAILRYLKRDNPEKYYWTIQKLGLNDAAITDEFNMD
RRYMQDYEFF

Ligand information

>8d8j Chain a (length=1183)

uuuuauauauauauaauaaggaaaaguauuuauaagaauaugauguuggu
ucagauuaagcgcuaaauaaggacaugacacaugcgaaucauacguuuau
uauugagauaauaaauaugugguguaaacgugaguaauuuuauuaggaau
uaaugaacuauagaauaagcuaaauacuuaauauuauauaaaaauaauuu
auauaauaaaaaggauauauauauauauauuuaucuauagucaagccaau
aaugguuuagguaguagguuuauuaagaguuaaaccuagccaacgaucca
uaaucgauaaugaaaguuagaacgaucacguugacucugaaauauaguca
auaucuauaagauacagcagugaggaauauuggacaaugaucgaaagauu
gauccaguuacuuauuaggaugauauauauauauauauaaauugauuaaa
aauaaaauccauaaauaauuaaaauaaugauauuaauuaccauauauuua
uauggauauauauauauuuuaauaguccugacuaauauuugugccagcag
ucgcgguaacacaaagagggcgagcguuaaucauaaugguuuaaaggauc
cguagaaugaauuauauauaauuuagaguuaauaaaauauaauuaaagaa
uuauaauaaauuauaagacuaauauaugugaaaauauuaauuaaauauua
acugacauugagggauuaaaacuagagucuaguaguaugaauacaauuau
uuauaauauauauauaaauaauaaaugaaaaugaaaguauuccaccugaa
gaguacguuagcaauaaugaaacucaaaacaauagacgguuacagacuua
agcaguggagcauguuauuuaauucuaccauauuuugaauauuauaauaa
uuauaauuauuauauuacaggcguuacauuguuaaugauccuuauaauau
ggguaauagacgugcuauaauaaaaugauaaaaaacauuuuaaauaugaa
aaaagaauugcuaguaauacguaaauuaguauguuacggugaauauucua
acuguuucgcacuaaucacucaucacgcguugaaacauauuauuaucuua
uuauuuauauaauauuuuuuaauaaauauuauuaauuuauauuuauuuau
aucagaaauaauaugaauuaaugcgaaguugaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8d8j Principles of mitoribosomal small subunit assembly in eukaryotes.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): F40 A43 R46 K47 N50 K53 Q54 N149 K150 K154 R161 D170 T171 G172 S173 Q177 R184 N187 H191 H195 D198 N201 R203 Q210 Q211 Y218 R221 E244 R249
• Binding residue (residue number reindexed from 1): F7 A10 R13 K14 N17 K20 Q21 N101 K102 K106 R113 D122 T123 G124 S125 Q129 R136 N139 H143 H147 D150 N153 R155 Q162 Q163 Y170 R173 E196 R201

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005737 cytoplasm
• 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:8d8j, PDBe:8d8j, PDBj:8d8j
• PDBsum: 8d8j
• PubMed: 36482135
• UniProt: P21771|RT28_YEAST Small ribosomal subunit protein uS15m (Gene Name=MRPS28)