Structure of PDB 8d8j Chain P Binding Site BS01

Receptor Information

>8d8j Chain P (length=115) Species: 4932 (Saccharomyces cerevisiae)

TCGLVRIRLARFGRKNSPVYNIVVANSRKARDAKPIEVLGTYVPVPSPVT
KRELKRGVVPIKDVKLDFDRTKYWIGVGAQPSETVTKLLRKAGILNDAWA
TSKNRKVVFERMETL

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): C3 G4 L5 V6 R7 R9 L10 R12 R15 K16 N17 Y21 N27 R29 R32 A34 K35 P47 R53 K63 V78 G79 Q81 S83 T85 K88 K104
• Binding residue (residue number reindexed from 1): C2 G3 L4 V5 R6 R8 L9 R11 R14 K15 N16 Y20 N26 R28 R31 A33 K34 P46 R52 K62 V77 G78 Q80 S82 T84 K87 K103

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

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: Q02608|RT16_YEAST Small ribosomal subunit protein bS16m (Gene Name=MRPS16)