Structure of PDB 8d8k Chain Z Binding Site BS01

Receptor Information

>8d8k Chain Z (length=84) Species: 4932 (Saccharomyces cerevisiae)

PVYRLPPLPRLKVKKPIIRQEANKCLVLMSNLLQCWSSYGHMSPKCAGLV
TELKSCTSESALGKSNINYHAARLYDRINGKPHD

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): R9 P12 L13 P14 R15 K17 V18 K19 K20 I22 R24 N77 I78 Y80 H81 P93 D95
• Binding residue (residue number reindexed from 1): R4 P7 L8 P9 R10 K12 V13 K14 K15 I17 R19 N66 I67 Y69 H70 P82 D84

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:0005759 mitochondrial matrix
• 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: O75012|MRP10_YEAST Small ribosomal subunit protein mS37 (Gene Name=MRP10)