Structure of PDB 7oh3 Chain D Binding Site BS01

Receptor Information

>7oh3 Chain D (length=267) Species: 559292 (Saccharomyces cerevisiae S288C)

SSAYSSRFQTPFRRRREGKTDYYQRKRLVTQHKAKYNTPKYRLVVRFTNK
DIICQIISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGLLIARR
TLQKLGLDEEAVEDGPRPFKVFLDIGLQRTTTGARVFGALKGASDGGLYV
PHSENRFPGWDFETEEIDPELLRSYIFGGHVSQYMEELADDDEERFSELF
KGYLADDIDADSLEDIYTSAHEAIRADPAFKPTEKKFTKEQYAAESKKYR
QTKLSKEERAARVAAKI

Ligand information

>7oh3 Chain 1 (length=3013)

guugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaaua
agcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaag
cggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaa
uuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaaca
ggacgucauagagggugagaaucccguguggcgaggagugcgguucuuug
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccugguaaguauu
auagccugugggaauacugccagcugggacugaggacugcgacguaaguc
aaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacca
aggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaa
ugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccgau
ccugaugucuucggauggauuugaguaagagcauagcuguugggacccga
aagauggugaacuaugccugaauagggugaagccagaggaaacucuggug
gaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguaua
ggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuu
cccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaaac
uuuaaauauguaagaaguccuuguuugaacguggacaugaaugaagagcu
uuuagugggccauuuuugguaagcagaacuggcgaugcgggaugaaccga
acguagaguuaaggugccggaauacacgcucaucagacacacaaaaggug
uuaguucaucuagacagccggacgguggccauggaagucggaauccgcua
aggaguguguaacaacucaccggccgaaugaacuagcccugaaaauggau
ggcgcucaagcguguuaccuauacucuaccgucaggguugugaugcccug
acgaguaggcaggcguggaggucagugacgaagccuagaccguaaggucg
ggucgaacggccucuagugcagaucuuggugguaguagcaaauauucaaa
ugagaacuuugaagacugaaguggggaaagguuccacgucaacagcaguu
ggacguggguuagucgauccuaagagauggggaagcuccguuucaaaggc
cuaggccaccaucgaaagggaauccgguuaagauuccggaaccuggauau
ggauucuucacgguaacguaacugaauguggagacgucggcgcgagcccu
gggaggaguuaucuuuucuucuuaacagcuuaucaccccggaauugguuu
auccggagauggggucuuauggcuggaagaggccagcacugcuggcuccg
gugcgcuugugacggcccgugaaaauccacaggaaggaauaguuuucaug
ccaggucguacugauaaccgcagcaggucuccaaggugaacagccucuag
uugauagaauaauguagauaagggaagucggcaaaauagauccguaacuu
cgggauaaggauuggcucuaagggucggacgaucaacuuagaacugguac
ggacaaggggaaucugacugucuaauuaaaacauagcauugcgaugguca
gaaagugauguugacgcaaugugauuucgcccagugcucugaaugucaaa
gugaagaaauucaaccaagcgcggguaaacggcgggaguaugacucucuu
aagguagccaaauggauuaacgagauucccacugucccuaucuacuaucu
agcgaaaccacagccaagggggcuuggcagaaucagcggggaagaagacc
cugugagcuugacucuaguuugacauugugaagagacauaguuucuuuac
uuauucaaugaagcggagcuggaauuauuuuccacguucuagcauucaag
gucccucggggcugauccgguugaagacauugucagguggggaguuuggg
ggcggcacaucuguuaaacgauaagcagauguccuaaggggggcucaugg
agaacagaaaucuccaguagaacaaaaggguaaaagcccccuugauuuug
auuuucagugugaauacaaaccaugaaaguguggccuaucgaucuuuagu
cccucggaauuugaggcuagaggugccagaaaguuaccacagggauaacu
ggcuuguggcagucaagcguucagcgacauugcuuuugauucuucgaugu
cggcucuuccuaucauaccgaagcagaauucgguaagcguuggauuguuc
acccacuaauagggaguagcuggguuuagaccgucgugagacagguuagu
uuacccuacugaugaauguuaccgcaauaguaauugaacuuaguacgaga
ggaacaguucauucggauaauugguuuuugcggcugucugaucaggcauu
gccgcgaagcuaccauccgcuggauuauggcugaacgccucuaagucaga
auccaugcuagaacgcggugauuucugcuccacacaauauagauggauac
gaauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacggu
gcacuuggcggaaaggccuugggugcuugcuggcgaauugcaaugucauu
uugcguggggauaaaucauuuguauacgacuuagauguacaacgggguau
uguaagcaguagaguagccuugguuacgaucugcugagauuaagccuuug
uugucugauuugu

.........................<<<<<<.....<<....>>......
>>>>>.>.........<<....>>..<<<<<......<<.....>>....
.>>>>>..<<<..<<.......<<.<<<<<<...>>>>>>.>>.......
>>....<<<<<<.<<<<<<<<<<<<<<<<<<<<<<....<<<<......>
>>>.((......<<<.....))>>>..>.>>>>>>>>..>>>>>>>>...
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>...............................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<......<<<<<<<.<<<
<<<<<<<<<<<<.....<<<<<<<<<......<<<<<<...>>>>>>...
....>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>>
.....>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><<<<
<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...<
<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<<
<<...<......>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<.
..<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.
....>>>...<<<<.<<.<<........>>>>>>>>....>>>>>>>>>.
..<<.......>>......>>>>>>......>.>>..<<<<<<....<.<
<<....>>>.><<.<<<<......<<<.<<<<<<....<..<........
.>..>....>>>>...<<<<.<<<....>>>.>>>>...>>>>>....>>
>>..>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>.
..<<<<<<<..<<<<(((.....<<<<<<.....<<.........<<<.<
<<<<<<<<<.......<<<<<.<<....<<.........>>....>>...
......<<......>>...>>>>>...>>>>>>>>>>>>>..........
))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<......>>>>>>
>>>....>>>>>><.<<<<<<<<.<<......<<<<.<<<<....>>>>>
>>>...>>>>>>>>>>..>.....>>>>>><<.....<<.....<<<<<<
.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<<.....>
>.>>>>>>....((<<<<<<...<<....<<<....>>>........<<<
<..>>>>....>>....>>...<<<<<........>>>>>))<<<<.<<<
<<<<.....<<<....>>>...<.{{<<<<<<...<<<<.<<<<<<<.<<
<<<<<<<<..[[[..>>>>>><...<<<<<....<<<<<<....<<<...
..>>>....>>>>>>.....>>>>>....><<<<<<<...>>>>>>>>>>
>...>>>>>>>.>>>>.........>>>>>>...>......>>>..>>>>
>>>>>>>>..>>.....<<......>>>>>>>.<<<<.....>>>>..>>
>>..<<<<.....<<<<<<<.<<.........<.....<<<<<.......
........>>>>><<.<<<<<<<<<<<..>>>>>..>>>>>>.>>.....
.......<<<<<<<<<..<<<.........>>>..<<<<<<<....<<<<
.....>>>>......>>>>>>>.............<<<.<<..<<<....
.<<<<....>>>>.....>>>>>>>>........<<.<......>.>>..
........<<..>>......>>.>>>>>>>..>..>>.>>>>>>>..>>>
>>>....>>....<<<<<....>>>>>....<<<<<..<<<<......<<
<<<<<<<<<..<<<<<.<<<<<<<<..<<<<<<<<<<...>>>>>>>>>>
...<<<<<.....<<<<...<<<<.....>>>>...........}}...<
<<<<<..>>>>>>..>>>>.>>>>>.....>>>>>>>>..>>>>>.....
.<..<...<<<<<<..........>>>>>>.......<<<<<<<...<<<
<<<.......>>>>>>.....<<......>>....>>>>>>>...<<<..
<<<<.......>>>>..>>>.<<<....>>>...>.>......<<<<<..
.<<<<.))))))>>>>.>>>>>.........>>>>..>>>>>>>......
.......<<<<<<...<<.....>>...>>>>>>................
<<<<...<<<<..<.<<<<<<<......>>>>>>>...>.<<<.......
..>>>.....>>>>....>>>>......<<<<<<<....>>>.>>>>...
.>..>>>.>>>>>....<<<<<<<<..<<<<.<.<<<<<<..........
.....>>>>>>.><<<<<...<<<<...<<<<<<<<<<<]]].>>>>>..
>>>>>>..>>>>..>>>>>.<<<<...<<<<<...........>>>>>..
.>>>>.>>>>....>>>>>>>>.....<<<<<<.<<<.<<....<<....
......<<<<<<.....>>>>>>......>>.......<<<<<<...<<<
<<.<..<<<......>>>..>.>>>>>.>>>>>>.............>>.
>>>.>>>>>>..<<<<<.<..<.......>..>.....<<<<<<<<<.<<
<....<<<<....<<<<<....>>>>>...>>>>...>>>....>>>>.>
>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oh3 Analysis of subunit folding contribution of three yeast large ribosomal subunit proteins required for stabilisation and processing of intermediate nuclear rRNA precursors.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): Y12 R15 F16 Q17 P19 R23 G26 D29 Y31 R35 L36 Q39 H40 F145 I148 R152 T153 F160 P174 H175 S176 N178 R179
• Binding residue (residue number reindexed from 1): Y4 R7 F8 Q9 P11 R15 G18 D21 Y23 R27 L28 Q31 H32 F122 I125 R129 T130 F137 P151 H152 S153 N155 R156

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7oh3, PDBe:7oh3, PDBj:7oh3
• PDBsum: 7oh3
• PubMed: 34813592
• UniProt: P26321|RL5_YEAST Large ribosomal subunit protein uL18 (Gene Name=RPL5)