Structure of PDB 8d8j Chain d Binding Site BS01

Receptor Information
>8d8j Chain d (length=660) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DILAKNLFDRSHSNWAPVIDRLYVSEKRFMDIDSREFSVWLNGTVKYLPF
HSILHLDEMLLEQINGDVVKFNTHMYECIFNNLGNLKPTNFNQDGTNDKV
ILKMKELLERYDKALKITEERINKVPKMTQAILNNCLKYSTKCSSFHDMD
YFITKFRDDYGITPNKQNLTTVIQFYSRKEMTKQAWNTFDTMKFLSTKHF
PDICTYNTMLRICEKERNFPKALDLFQEIQDHNIKPTTNTYIMMARVLAS
SSSNAVVSEGKSDSLRLLGWKYLHELEDKNLYRHKKDDLNLFLAMMALAA
FDGDIELSRALYYLFIAKKYKTLCANWKGNILVDQDTIWKSTLMPEMLNY
LMLAYARFDPRNLPVLSGYEKGIELRRKFLREFDSSMRLKFKLPFLPISD
LNSEAQVLAESNAIWSFNMENGGTRNTLTSSNEAALEDIKKYRQLLDSFA
QEAEDFNEFKFKVMYEVTKMQRESINVNVFNKISLHTYLSIPINLKQQKE
FLRRLTFFTFQQHEFEAVIKRLYEGYRNNLIMHDIWYITCLRHKIMMDTT
LYELVMKAAIEFQNEDLAKKVWNDRGKFRTTVPFLKMDQRIRIAKDQKFA
HLMVEFFTKQGKYSDAIAIILSSKNRFNWTYSMVRNLHKALEEIEDRNSV
EILLDVVNKK
Ligand information
>8d8j Chain a (length=1183) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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
Global viewLocal viewStructure summary

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PDB8d8j Principles of mitoribosomal small subunit assembly in eukaryotes.
Resolution3.8 Å
Binding residue
(original residue number in PDB)		R182 H221 K278 T283 Q284 A285 N288 K292 Q321 T324 T325 Q328 R332 D356 C358 R365 R371 N393 M397 H438 K440 D441 L443 N444 P499 E500 N503 L507 N642 I644 H647 K787 Y820 N847
Binding residue
(residue number reindexed from 1)		R35 H74 K124 T129 Q130 A131 N134 K138 Q167 T170 T171 Q174 R178 D202 C204 R211 R217 N239 M243 H284 K286 D287 L289 N290 P345 E346 N349 L353 N481 I483 H486 K598 Y631 N658
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003729 mRNA binding
GO:0019843 rRNA binding
Biological Process
GO:0000002 mitochondrial genome maintenance
GO:0000963 mitochondrial RNA processing
GO:0006396 RNA processing
GO:0006397 mRNA processing
GO:0007005 mitochondrion organization
GO:0008380 RNA splicing
GO:0016072 rRNA metabolic process
GO:2000234 positive regulation of rRNA processing
Cellular Component
GO:0005739 mitochondrion

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8d8j, PDBe:8d8j, PDBj:8d8j
PDBsum8d8j
PubMed36482135
UniProtP48237|CCM1_YEAST Mitochondrial 15S rRNA processing factor CCM1 (Gene Name=CCM1)

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