Structure of PDB 7nac Chain 5 Binding Site BS01

Receptor Information

>7nac Chain 5 (length=141) Species: 1247190 (Saccharomyces cerevisiae BY4741)

NRQILTRGKQSKKFGTDEVTFDKDSRLDYLTGFHKRKLQRQKKAQEFIKE
QERLRKIEERQKIRQERKEVMEEQLKTFKESLNAITEIYDDSTTVELETL
EPNDNFEYLAQLNNVKLEKAKFRYLTKNERRINQRKANDNK

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): H44 R46 K47 R50 K53 F57 R63 R70 R214 Y215 T217 K218 R221 R222 Q225 K232
• Binding residue (residue number reindexed from 1): H34 R36 K37 R40 K43 F47 R53 R60 R123 Y124 T126 K127 R130 R131 Q134 K141

Gene Ontology

Molecular Function

• GO:0004534 5'-3' RNA exonuclease activity
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:1990275 preribosome binding

Biological Process

• GO:0000477 generation of mature 5'-end of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0006364 rRNA processing
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0034399 nuclear periphery

External links

• PDB: RCSB:7nac, PDBe:7nac, PDBj:7nac
• PDBsum: 7nac
• PubMed: 36482249
• UniProt: Q04031|RRP17_YEAST Ribosomal RNA-processing protein 17 (Gene Name=RRP17)