Structure of PDB 7nac Chain 7 Binding Site BS01

Receptor Information

>7nac Chain 7 (length=129) Species: 1247190 (Saccharomyces cerevisiae BY4741)

QNLRREVAPEVFQDSQARNQLANVPHLTEKSAQRKPSKTKVKKEQSLARL
YGAKDLNIPTLNRAIVPGVKIRRGKKGKKFIADNDTLTLNRLITTIGDKY
DDIAESKLEKARRLEEIRELKRKEIERKE

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): N11 L12 R13 R14 E19 Q42 T48 K49 K51 Q54 L56 R58 Y60 K94 K95 K97
• Binding residue (residue number reindexed from 1): N2 L3 R4 R5 E10 Q33 T39 K40 K42 Q45 L47 R49 Y51 K75 K76 K78

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0005515 protein binding
• GO:0042802 identical protein binding

Biological Process

• GO:0000055 ribosomal large subunit export from nucleus
• GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000472 endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000480 endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0008298 intracellular mRNA localization
• GO:0017148 negative regulation of translation
• GO:0042254 ribosome biogenesis
• GO:0042273 ribosomal large subunit biogenesis
• GO:0051028 mRNA transport

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0030687 preribosome, large subunit precursor
• GO:0101031 protein folding chaperone complex

External links

• PDB: RCSB:7nac, PDBe:7nac, PDBj:7nac
• PDBsum: 7nac
• PubMed: 36482249
• UniProt: P43586|LOC1_YEAST 60S ribosomal subunit assembly/export protein LOC1 (Gene Name=LOC1)