Structure of PDB 7nac Chain t Binding Site BS01

Receptor Information

>7nac Chain t (length=285) Species: 1247190 (Saccharomyces cerevisiae BY4741)

LNSNPEILLRKRRNADRTRIERQELAKKKREEQIKKKRSNKNKFVRAESI
VAKTLATSREKERIKRVSILEDKKAKNETQHIASGKDFILKITEGLIREK
TTYDGKPALLFIVRVRGPLAVNIPNKAFKILSLLRLVETNTGVFVKLTKN
VYPLLKVIAPYVVIGKPSLSSIRSLIQKRGRIIYKEPHEIVLNDNNIVEE
QLGDHGIICVEDIIHEIATMGESFSVCNFFLQPFKLNREVSGFGSLNRLR
KIKQREAESRTRQFSNAATAPVIEVDIDSLLAKLN

Ligand information

>7nac Chain 1 (length=2661)

guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaagu
acagugauggaaagaugaaaagaacuuugaaaagagagugaaaaaguacg
ugaaauuguugaaagggaagggcauuugaucagacaugguguuuugugcc
cucugcuccuuguggguaggggaaucucgcauuucacugggccagcauca
guuuugguggcaggauaaauccauaggaauguagcuugccucgguaagua
uuauagccugugggaauacugccagcugggacugaggacugcgacguaag
ucaaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggac
caaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgu
aaugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccg
auccugaggauggauuugaguaagagcauagcuguugggacccgaaagau
ggugaacuaugccugaauagggugaagccagaggaaacucugguggaggc
ucggcggucgaucgucgaauuuggguauaggggcgaaagacaaccaucua
guagcugguuccugccgaaguuucccucaggauagcagaagcucguauca
guuuuaugaauguaagaaugaagagcuuuuagugggccauuuuugguaag
cagaacuggcgaugcgggaugaaccgaacguagaguuaaggugccggaau
acacgcucaucagacaccacaaaagguguuaguucaucuagacagccgga
cgguggccauggaagucggaauccgcuaaggaguguguaacaacucaccg
gccgaaugaacuagcccugaaaauggauggcgcucaagcguguuaccuau
acucuaccgucaggguugauaugaugcccugacgaguaggcaggcgugga
ggucagugacgaagccuagaccguaaggucgggucgaacggccucuagug
cagaucuuggugguaguagcaaauauucaaaugagaacuuugaagacuga
aguggggaaagguuccacgucaacagcaguuggacguggguuagucgauc
cuaagagauggggaagcuccguuucaaaggccugauuuuaugcaggccac
caucgaaagggaauccgguuaagauuccggaaccuggauauggauucuuc
acgguaacguaacugaauguggagacgucggcgcgagcccugggaggagu
uaucuuuucuucuuaacagcuuaucaccccggaauugguuuauccggaga
uggggucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgc
uugugacggcccgugaaaauccacaggaaggaauaguuuucaugccaggu
cguacuucuccaaggugaacagccucuaguugauagaauaauguagauaa
gggaagucgguccguaacuucgggauaaggauuggcucuaagggucgggu
agugagggccuuggucacggccuuggcuugcuacaauuaacgaucaacuu
agaacugguacggacaaggggaaucugacuguuaacgagauucccacugu
cccuaucuacuaucuagcgaaaccacagccaagggaacgggcuuggcaga
aucagcggggaacccuguugagcuugacucuaguuugacauugugaagag
acauagaggguguagaauaagugggagcuucggcgccagugaaauaccac
uaccuuuauaguuucuuuacuauugucagguggggaguaaaguuaccaca
gggauaacuggcuuguggcagucaagcguucauagcgacauugcucggcu
cuuccuaucauaccgaagcagaauucgguaagcguuggauuguucaccca
cuaauagggaacgugagcuggguuuagaccgucgugagacagguuaguuu
uacccuacugaugaauguuaccgcaauaguaauugaacuuaguacgagag
gaacaguucauucggauaauugguuuuugcggcugucugaucaggcauug
ccgcgaagcuaccauccgcuggauuauggcugaacgccucuaagucagaa
uccaugcuagaacgcggugauuucuuugcuccacacaauauagauggaua
cgaauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacgg
ugcacuuggcggaaaggccuugggugcuugcuggcgaauugcaaugucau
uuugcguggggauaaaucauuuguauacgacuuagauguacaacggggua
uuguaagcaguagaguagccguuacgaucugcugagauuaagccuuuguu
gucugauuugu

..........................<<<<<<.....<<....>>.....
.>>>>>.>.........<<....>>..<<<<<......<<.....>>...
..>>>>>..<<<..<<.......<<.<<<<<<...>>>>>>.>>......
.>>....<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>..
..>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<
<<<<..>>>>>>..>>>.................................
.<<....>>...............<<<<....>>>>..............
....................<<<<<.<<<<<.....<<<<<....<<..<
<<<<<<<<.....>>>>>>>>>......>>....>>>>>.<<<<<<<.<<
<<<<<<<<<<<<<.....<<<<<<<<<......<<<<<......>>>>>.
......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>
>>.....>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><<
<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>..
.<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<.<
<<<<.......>>>.>>..>>....>>>>>>.>>>>>>..<<.<...<<<
<<<...<<<<<<<<<<...<<<....<<<<<<<....>>>>>>>.....>
>>.<<<<....>>>>.....>>>>>>>>>>...<....>...>>>>>>..
....>.>>..<<<<<<....<.<<<....>>>.><<<<<<<<<<...<<<
.<<<<<<....>>>>.>>>>>.>>>>>>>>.>>..<<<<.<<<<<.....
>>>>>.>>>>....<<<......>>>...<<<<<<<..<<<<(((.....
<<<<<<.....<<..........<<<.<<<<<<<<<<.......<<<<<.
<<....<<.........>>....>>.........<<......>>...>>>
>>...>>>>>>>>>>>>>..........))).>>...>>>>>>.>>>>..
>>>>>>><<<<<<<<<.........>>>>>>>>>....>>>>>>..<<<<
<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>>>...
.....>>>>>><<.....<<.....<<<<<<.......>>>>>><<<<..
...<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<<<
<...<<....<<<....>>>........<<<<<<........>>>>>>..
..>>....>>...<<<<<........>>>>>))<<<<.<<<<<<......
<<<....>>>.......<<<<<<...<<<<.<<<<<<<.<<<<<<<<<<.
.(((..>>>>>><...<<<<<....<<<<<<....<<<.....>>>....
>>>>>>.....>>>>>....><<<<<<<......>>>>>>>>>>>...>>
>>>>>.>>>>.........>>>>>>............>>.>>>>>>>>>>
>>..>>>>>>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.
<<........<<<<<<.<<<<.....................<<<<<.<<
<<<<<<..<<..<<<<..>>>>..>>>>>>>>>>......>>>>>.....
.>>>...>>>>>>>....<<<<<<<<<........>>.>>>>>>>.....
>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>>>....
<<<<<..<<<..<<<<<<.<<<<<<..<<<<.<<<<.<<...<<<<<<<<
<<..<<<.<..........<<<<<..<<<..>>>............>>>>
>..>>>>...>>>>>>>>>>....>>.>>>>..>>>>..>>>>>.>.>>>
>>>.............<<<<<<...<<.......>>...>>>>>>.....
..<<<<..<.<<<<<<<......>>>>>>>...>.<<<.........>>>
.....>>>>.................<<<<<<<....>>>.>>>>.....
...>>>.>>>>>....<<<<<<<<..<<<<.<.<<<<<<...........
....>>>>>>.><<<<<...<<<<....<<<<<<<<<<))).>>>>>..>
>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>>...
>>>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<....<<...
.......<<<<<<.....>>>>>>......>>.......<<<<<<...<<
<<<.<..<<<......>>>..>.>>>>>.>>>>>>.............>>
.>>>.>>>>>>..<<<<<.<.............>.....<<<<<<<<<.<
<<....<<<<....<<.......>>...>>>>...>>>....>>>>.>>>
>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7nac Sequence-specific remodeling of a topologically complex RNP substrate by Spb4.
• Resolution: 3.04 Å
• Binding residue (original residue number in PDB): L12 R24 T29 R33 A37 K40 Q44 N51 K54 F280 G281 N284
• Binding residue (residue number reindexed from 1): L1 R13 T18 R22 A26 K29 Q33 N40 K43 F243 G244 N247

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0042134 rRNA primary transcript binding

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000465 exonucleolytic trimming to generate mature 5'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0042254 ribosome biogenesis
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0022625 cytosolic large ribosomal subunit
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:7nac, PDBe:7nac, PDBj:7nac
• PDBsum: 7nac
• PubMed: 36482249
• UniProt: P40693|RLP7_YEAST Ribosome biogenesis protein RLP7 (Gene Name=RLP7)