Structure of PDB 6i9r Chain K Binding Site BS01

Receptor Information

>6i9r Chain K (length=177) Species: 9606 (Homo sapiens)

SSFSRAPQQWATFARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALS
DCGDHVVIMNTRHIAFSGNKWEQKVYSSHTGYPGGFRQVTAAQLHLRDPV
AIVKLAIYGMLPKNLHRRTMMERLHLFPDEYIPEDILKNLVEELPQPRKI
PKRLDEYTQEEIDAFPRLWTPPEDYRL

Ligand information

>6i9r Chain A (length=1501)

cuaaaccuagccccaaacccacuccaccuuacuaccagacaaccuuagcc
aaaccauuuacccaaauaaaguauaggcgauagaaauugaaaccuggcgc
aauagauauaguaccgcaagggaaagaugaaaaauuauaaccaagcauaa
uauagcaaggacuaaccccuauaccuucugcauaaugaauuaacuagaaa
uaacuuugcaaggagagccaaagcuaagacccccgaaaccagacgagcua
ccuaagaacagcuaaaagagcacacccgucuauguagcaaaauaguggga
agauuuauagguagaggcgacaaaccuaccgagccuggugauagcugguu
guccaagauagaaucuuaguucaacuuuaaauuugcccacagaacccuaa
auccccuuguaaauuuaacuguuaguccaaagaggaacagcucuuuggac
acuaggaaaaaaccuuguagagagaguaaaaaauuuaacacccauaguag
gccuaaaagcagccaccaauuaagaaagcguucaagcucaacaccaaaaa
ucccaaacauauaacugaacuccucacacccaauuggaccaaucuaucac
ccuauagaagaacuaauguuaguauaaguaacaugaaaacauucuccucc
gcauaagccugcgucagauaacacaacugacaauuaacagcccaauaucu
acaaucaaccaacaagucauuauuacccucacugucaacccaacacaggc
augcucauaaggaaagguuaaaaaaaguaaaaggaacucggcaaaucuua
ccccgccuguuuaccaaaaacaucaccucuagcaucaccaguauuagagg
caccgccugcccagugacacauguuuaacggccgcgguacccuaaccgug
caaagguagcauaaucacuuguuccuuaaauagggaccuguaugaauggc
uccacgaggguucagcugucucuuacuuuuaaccagugaaauugaccugc
ccgugaagaggcgggcauaacacagcaagacgagaagacccuauggagcu
uuaauuuauuaaugcaaacaguaaccaaaccugcauuaaaaauuucgguu
ggggcgaccucggagcagaacccaaccuccgagcaguacaugcuaagacu
ucaccagucaaagcgaaccucaauugauccaauaacuugaccaacggaac
aaguuacccuagggauaacagcgcaauccuauucuagaguccauaucaac
aauaggguuuacgaccucgauguuggaucaggacaucccgauggugcagc
cgcuauuaaagguucguuuguucaacgauuaaaguccuacgugaucugag
uucagaccggaguaauccaggucgguuucuaucuacuuauuccucccugu
acgaaaggacaagagaaauaaggccuacuucacaaagcgccuucccccgu
aaaugauaucaucucaacuuaguauacccacacccacccaagaacagggu
u

<<.......<<<<.....................................
<......>.........<.....<<.....>>....>........>>.>>
.............<<....>>......................>>.....
.......<<<.......>>>...<.<........>.>.<<<<<<......
...<<<.<<..<<....>>...>>.>>>...<<.<..<<<<<.<.....<
<<<<.<<<..<<<.....>>>...<<<..<<<<........>>>>.>>>.
...>>>.>>>>>...<<.......>>......>.>>>>...>..>.>>..
<<<<<<....<<<<....>>>><<<.<<<<<<<<<<.....<<.......
.>>.....>>>>>>>>>>..>>>.<<<<<<<<<<......>>>>>>>>>>
...<<<......>>>....<<<.<<<...<..............<....<
<<.........>>>....>.......<<<......>>>............
...............>...>>>>>>........>>>>>>...<<<<<...
...>>>>>.........>>>>>><......<<..<<<....>>><<<<..
<<<<........<<<<<.........>>>>>......<<<...<<<<...
....................>>>>.......>>>.....<<......>>.
>>>>.....>>>>..<<<<...<<<<<<<<.<<.........<......<
<<<<<..<<<.........>>>...<<<<<<.............>>>>>>
....<<<.<<<..<<<<<....>>>..>>>>><<<<<<......>>>>>>
........<...........<<<<<<.....>>>>>>.....>....>>>
....>>.>>>>.....>..>>.>>>>>>>>>>>>.>>.....>.....<<
<<<........>>>>>.......<<..<<<.<<......<<<<.<<<<<<
..<<<<..<<<<<<<<...............>>>>>>>>.>>>>..<<<<
.....>>>><<<<<<...........>>>>>>..<<.....<<<..<<<<
.....>>>>..>>>....>>.........<<<....>>>...........
.>>>>..>>>>>>.......<<<..<.<<<<<<...<<.......>>...
>>>>>>...>.>>.>.......<<<<<.<<<<<<..<<.<<<<<<.....
.>>>>>>...>>.<<<<.......>>>>.....>>>>>..>...>>>.>>
....<<<<<<<....>>>.>>>>....>>..>>>.>>.<<<.<<<.....
............>>>.>>><<<<<...<<<....>>>.>>>>>......<
<<................>>>..............<<<<.......>>>>
.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6i9r Inhibition of mitochondrial translation suppresses glioblastoma stem cell growth.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): P27 G29 K30 L50 S68 K71 K75 Y77 S78 H80 F87 Q94 R98 Y109 G110 M111 K114 N115 L116 H117 R119 Y176 R177
• Binding residue (residue number reindexed from 1): P26 G28 K29 L49 S67 K70 K74 Y76 S77 H79 F86 Q93 R97 Y108 G109 M110 K113 N114 L115 H116 R118 Y175 R176

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0006412 translation
• GO:0017148 negative regulation of translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005761 mitochondrial ribosome
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6i9r, PDBe:6i9r, PDBj:6i9r
• PDBsum: 6i9r
• PubMed: 33910005
• UniProt: Q9BYD1|RM13_HUMAN Large ribosomal subunit protein uL13m (Gene Name=MRPL13)