Structure of PDB 8om4 Chain D Binding Site BS01

Receptor Information
>8om4 Chain D (length=341) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PRKANLLKSLARGRVRTSFNKYNLFNLYKKGGVDLKSKSLYQQKWTAKQE
TRAYHGEHLTEKRWQTVFKPKLDSVAQLDASLRGGEIKETPFLLQTFAVL
EKRLDFALFRAMFASSVRQARQFILHGNVRVNGVKIKHPSYTLKPGDMFS
VKPDKVLEALGAKKPSFQEALKIDKTQIVLWNKYVKEAKTEPKEVWEKKL
ENFEKMSDSNPKKLQFQEFLRQYSLTFDPKWAKNLKYHDPIKLSELEGDE
PKARKLINLPWQKNYVYGRQDPKKPFFTPWKPRPFLSPFAILPHHLEISF
KTCHAVYLRDPVARPGQSEVISPFDVPVHERAYMYYLRNGK
Ligand information
>8om4 Chain r (length=1487) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
auaagaauaugauguugguucagauuaagcgcuaaauaaggacaugacac
augcgaaucauacguuuauuauugauaagauaauaaauaugugguguaaa
cgugaguaauuuuauuaggaauuaaugaacuauagaauaagcuaaauacu
uaauauauaaaaaggauauauaauauauuuaucuauagucaagccaauaa
ugguuuagguaguagguuuauuaagaguuaaaccuagccaacgauccaua
aucgauaaugaaaguuagaacgaucacguugacucugaaauauagucaau
aucuauaagauacagcagugaggaauauuggacaaugaucgaaagauuga
uccaguuacuuauuaggaugauauauaaauauauauauauaaauugauua
aaaauaaaauccauaaauaauuaaaauaaugauauuaauuaccauauauu
uuuauauggauauauuuuaauaguccugacuaauauuugugccagcaguc
gcgguaacacaaagagggcgagcguuaaucauaaugguuuaaaggauccg
uagaaugaauuauauauuauaauuuagaguuaauaaaauuaauuaaagaa
uuauaauaguaaagaugaaauaaauaauuauaagacuaauauaugugaaa
auauuaauuaaauauuaacugacauugagggauuaaaacuagaguagcga
aacggauucgauacccguguaguucuaguaguaaacuaugaauacaauua
uuuauauauauauauauaaauaauaaaugaaaaugaaaguauuccaccug
aagaguacguuagcaauaaugaaacucaaaacaauagacgguuacagacu
uaagcaguggagcauguuauuuaauucgauaauccacgacuaaccuuacc
auauuuugaauauuauaauaauuaaauuauuauauuacaggcguuacauu
guugucuuuaguucgugcugcaaaguuuuagauuaaguucauaaacgaac
aaaacuccauauauauaauuuuaauuauauauaauuuuauauuauuuauu
aauauaaagaaaggaauuaagacaaaucauaaugauccuuauaauauggg
uaauagacgugcuauaauaaaaugauaauaaaauuauauaaaauauauuu
aauuauauuuaauuaauaauauaaaacauuuuaauuuuuaauauauuuuu
uuauuauauauuaauaugaauuauaaucugaaauucgauuauaugaaaaa
agaauugcuaguaauacguaaauuaguauguuacggugaauauucuaacu
guuucgcacuaaucacucaucacgcguugaaacauauuauuaucuuauua
uuuauauaauauuuuuuaauaaauuuauuaauuuauauuuauuuauauca
gaaauaauaugaauuaaugcgaaguugaaauacaguuaccguaggggaac
cugcggugggcuuauaaauaucuuaaauauucuuaca
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<<<<<<<<<<<.....>>>>>>>>>>..>>>>>.....
<<<........<<<<<.<<.........<<<<<<<<.<<<<.......>>
>>...........<<<<<<<<.>>>>>>>>.>>>>>>>>....>>>>>>>
<<<....<<<..<<<<<<<<........>>>>>>>>>>>......>>>..
<<<<.<<<<....>>>>...>>>>.>>><<<<<<.........>>>>>><
<<<.....>>>>..>>>>>>.........<<<....<<<<....>>>>..
>>>..>>.>>>>>>.<<<<..<<<<<<........>>>>>>..<<.....
.>>.....>>>>..<<<<<<<<..............>>>>><<<<<<<..
..>>>>>>><<..>>>>>....<<<<<(((.....<<<<.....<<.)))
>>.......>>>>.>>>>>..>>>>>>>>>.....<<<((.....<<<<.
..<.<<.<<<<<<<...>>>>>>>...<<<<<<<<...<<<<<<<<<<..
<<<<<<<...................>>>>>>>..>>.......<<....
>>.>>>>>>>>.>>>>>>>>...>>>...>>>>....<<<<<<...<<..
.<<<<.........>>>>...>>>>>>>>..........<<<<<<.<<<<
<<<<<<<<<..>>>>>>>>>>>>>..<<..))>>....>>>>>>.>>>.<
<.......<<<<....>>>>.....>>..)))).]<<.<<...<<<<...
..<<<<<<..<<<<<<<<<<......<<........>>..........<<
<<<<<.....<<.<<<<<<<<<<.>>>>>>>>>>.>>.<<<.<<<..<<<
<<<<<<<<..<<<<<<<<<....>>>....<<......>>....>>>>>>
.....<<<.<<<<<<<<........>>>>>>>>..<<<<<<<<<.....>
>>>>>>>>....>>>...>>>>>.>>>...>>>>>>>>>...>>>>>>>.
..>>.>>>>>>>>.....<<<<<<........<<<..<<..<<<<<<...
...>>>>>>..>>....>>>......>>>>>>......<<<<<.<....>
.>>>>>..........<....<<<<<<<........>>>>>>>....>..
...>>>>>>....<<.<<<<<.........>>>>>>>...........>>
>>..>>..>>....<.<<<.<.<<<<<<<<..<<<<<<<<<.<<<...<<
<..<<<.<<<<<...<<<<<<<..>>>>>>>...>>>>>>>>..>>>..>
>>>>>>>>>>>..>>>>>>>>..>.>>>..>.....<<<<<<<<<....>
>>>>>>>>.............................
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8om4 METTL17 is an Fe-S cluster checkpoint for mitochondrial translation.
Resolution2.32 Å
Binding residue
(original residue number in PDB)
P2 L7 K9 S10 L11 R13 N21 K22 Y23 Y42 Q43 K45 W46 K49 Q50 T61 E62 K63 R64 S116 S117 R119 Q120 R122 Q123 L126 H127 R131 G134 E159 K164 K165 S167 E170 T177 V180 L181 W182 N183 K184 Y185 K187 W197 K200 K213 F220 Y224 D373 W376 L380 K381 Y382 H383 P385 N403 L404 P405 W406 K408 R428 M479 R483 N484 K486
Binding residue
(residue number reindexed from 1)
P1 L6 K8 S9 L10 R12 N20 K21 Y22 Y41 Q42 K44 W45 K48 Q49 T60 E61 K62 R63 S115 S116 R118 Q119 R121 Q122 L125 H126 R130 G133 E158 K163 K164 S166 E169 T176 V179 L180 W181 N182 K183 Y184 K186 W196 K199 K212 F219 Y223 D228 W231 L235 K236 Y237 H238 P240 N258 L259 P260 W261 K263 R283 M334 R338 N339 K341
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0032543 mitochondrial translation
GO:0042274 ribosomal small subunit biogenesis
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005763 mitochondrial small ribosomal subunit
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8om4, PDBe:8om4, PDBj:8om4
PDBsum8om4
PubMed38199006
UniProtP27929|NAM9_YEAST Small ribosomal subunit protein uS4m (Gene Name=NAM9)

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