Structure of PDB 7u0h Chain W Binding Site BS01

Receptor Information

>7u0h Chain W (length=232) Species: 1247190 (Saccharomyces cerevisiae BY4741)

RSKRSKLVTLAQTDKKGRENKERIFDEVREALDTYRYVWVLHLDDVRTPV
LQEIRTSWAGSKLIMGKRKVLQKALGEKREEEYKENLYQLSKLCSGVTGL
LFTDEDVNTVKEYFKSYVRSDYSRPNTKAPLTFTIPEGIVYSRGGQIPAE
EDVPMIHSLEPTMRNKFEIPTKIKAGKITIDSPYLVCTEGEKLDVRQALI
LKQFGIAASEFKVKVSAYYDNDSSTVESTNIN

Ligand information

>7u0h Chain 1 (length=2722)

guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaac
aaguacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaag
uacgugaaauuguugaaagggaagggcauuugaucagacaugguguuuug
ugcccucugcuccuuguggguaggggaaucucgcauuucacugggccagc
aucaguuuugguggcaggauaaauccauaggaauguagcuugccucggua
aguauuauagccugugggaauacugccagcugggacugaggacugcgacg
uaagucaaggaugcuggcauaaugguuauaugccgcccgucuugaaacac
ggaccaaggagucuaacgucuaugcgaguguuuggguguaaaacccauac
gcguaaugaaagugaacguagguuggggccucgcaagaggugcacaaucg
accgauccugaugucuucggauggauuugaguaagagcauagcuguuggg
acccgaaagauggugaacuaugccugaauagggugaagccagaggaaacu
cugguggaggcucguagcgguucugacgugcaaaucgaucgucgaauuug
gguauaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccg
aaguuucccucaggauagcagaagcucguaucaguuuuaugagguaaagc
gaaaacuuuaaauauguaaaaugaagagcuuuuagugggccauuuuuggu
aagcagaacuggcgaugcgggaugaaccgaacguagaguuaaggugccgg
aauacacgcucaucagacaccacaaaagguguuaguucaucuagacagcc
ggacgguggccauggaagucggaauccgcuaaggaguguguaacaacuca
ccggccgaaugaacuagcccugaaaauggauggcgcucaagcguguuacc
uauacucuaccgucaggguuggaugcccugacgaguaggcaggcguggag
gucagugacgaagccuagaccguaaggucgggucgaacggccucuagugc
agaucuuggugguaguagcaaauauucaaaugagaacuuugaagacugaa
guggggaaagguuccacgucaacagcaguuggacguggguuagucgaucc
uaagagauggggaagcuccguuucaaaggccugauuuuaugcaggccacc
aucgaaagggaauccgguuaagauuccggaaccuggauauggauucuuca
cgguaacguaacugaauguggagacgucggcgcgagcccugggaggaguu
aucuuuucuucuuaacagcuuaucaccccggaauugguuuauccggagau
ggggucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgcu
ugugacggcccgugaaaauccacaggaaggaauaguuuucaugccagguc
guacugauaaccgcagcaggucuccaaggugaacagccucuaguugauag
aauaauguagauaagggaagucggcaaaauagauccguaacuucgggaua
aggauuggcucuaagggucggguagugagggccuuggucagacguagacg
gccuuggugucgcuugcuacaauuaacgaucaacuuagaacugguacgga
caaggggaaucugacugucuaauuaaaacauagcauugcgauggucagaa
agugauguugacgcaaugugauuucgauuaacgagauucccacugucccu
aucuacuaucuagcgaaaccacagccaagggaacgggcuuggcagaauca
gcggggcccuguugagcuuuuagucccucggaauuugaggcuagaaguua
ccacagggauaacuggcuuguggcagucaagcguucauagcgacauugcu
uuuugauugaugucggcucuuccuaucauaccgaagcagaauucgguaag
cguuggauuguucacccacuaauagggaagcuggaccgucgugagacagg
uuaguuuacccuacugaugaauguuaccgcaauaguaauugaacuuagua
cgagaggaacaguucauucggauaauugguuuuugcggcugucugaucag
gcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaag
ucagaauccaugcuagaacgcggugauuucuuugcuccacacaauauaga
uggauacgaauaaggcguccuuguggcgucgcugaaccauagcaggcuag
caacggugcacuuggcggaaaggccuugggugcuugcuggcgaauugcaa
ugucauuuugcguggggauaaaucauuuguauacgacuuagauguacaac
gggguauuguaagcaguagaguagccuuguuguuacgaucugcugagauu
aagccuuuguugucugauuugu

..........................<<<<<<.....<<....>>.....
.>>>>>.>.........<<....>>..<<<<<......<<.....>>...
..>>>>>..<<<...........<<.<<<<<<...>>>>>>.>>......
.......<<<<<<.<<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>>..>>>>>>>..
..>>>>>>>>>>>........<<<<<<<.<....>.>>>>>>>.....<<
<<<..((((((>>>>>..>>>.............................
.....<<....>>...............<<<<....>>>>..........
........................<<<<<.<<<<<......<<<<....<
<..<<<<<<.<........>>>>>>>......>>....>>>>..<<<<<<
<.<<<<<<<<<<<<<<<.....<<<<<<<<<....<.<<<<<......>>
>>>>......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<.
...>>>.....>>>>>>>.....>>>>>.>>>>>..<<<<.<....>.>>
>><<<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>
>>...<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.
<<<<<<<<...<<....>>...>>>>.>>.>>....>>>>>>.>>>>>>.
.<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>
>>>>>.....>>>...<<<<.<<.<<........>>>>>>>>....>>>>
>>>>>...<<.......>>......>>>>>>>.....>.>>..<<<<<<.
...<.<<......>>.><<<<<<<<<<...<<<.<<<<<<..........
...............>>>>>>>>>.>>>>>>>>.>>..<<<<.<<<<<..
...>>>>>.>>>>....<<<......>>>...<<<<<<<..<<<<(((..
...<<<<<<.....<<..........<<<.<<<<<<<<<<.......<<<
<<.<<<...<<.........>>...>>>.........<<......>>...
>>>>>...>>>>>>>>>>>>>..........))).>>...>>>>>>.>>>
>..>>>>>>><<<<<<<<<.....>>>>>>>>>....>>>>>><.<<<<<
<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>>>..>.
....>>>>>><<.....<<.....<<<<<<.......>>>>>><<<<...
..<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<<<<
...<<....<<<....>>>........<<<<<<........>>>>>>...
.>>....>>...<<<<<........>>>>>))<<<<.<<<<<<<<....<
<<....>>>...<...<<<<<<...<<<<.<<<<<<<<<<<<<<<<<<..
[[[..>>>>>><...<<<<<....<<<<<<....<<<.....>>>....>
>>>>>.....>>>>>....><<<<<<<<....>>>>>>>>>>>>.>.>>>
>>>>.>>>>.........>>>>>>...>.....>>>>..>>>>>>>>>>>
>..>>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<
<.....<<<<<<<.<<...............<<<<<..............
.>>>>><<.<<<<<<<<<<<..<<<<<<<.....................
............>>>>>>>.......>>>>>..>>>>>>.>>........
....<<<<<<<<<..<<<.........>>>..<<<<<<<....<<<<...
..>>>>......>>>>>>>....<..>....>>.>>>>>>>.....>>.>
>>>>>>..>>>>>>....>>....<<<<<........>>>>>....<<<<
<..<<<<<<<<<.<<<<<<<<<...<<<<.))))))>>>>.>>>>>>>>.
>.>>>>>>..............<<<<<...<<.......>>...>>>>>.
........((....<<<..<<<<<..<.<<<<<<<......>>>>>>>..
.>.<<<.....))..>>>.....>>>>>.>>>.<<<<<<<....>>>.>>
>>.......>>>.>>>>>....<<<<<<<<..<<<<.<.<<<<<<.....
..........>>>>>>.><<<<<...<<<<....<<<<<<<<<<]]].>>
>>>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>
>>>...>>>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<...
.<<..........<<<<<<.....>>>>>>......>>.......<<<<<
<...<<<<<.<..<<<......>>>..>.>>>>>.>>>>>>.........
....>>.>>>.>>>>>>..<<<<<<<.............>.....<<<<<
<<<<.<<<....<<<<.<..<<<<<......>>>>>..>>>>>...>>>.
...>>>>.>>>>>.>>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7u0h Sequence-specific remodeling of a topologically complex RNP substrate by Spb4.
• Resolution: 2.76 Å
• Binding residue (original residue number in PDB): R3 S4 K5 R6 S7 A13 T15 D16 K17 K18 R20 N22 E24 R25 F27 D47 R49 T50 L53 Q54 R57 M67 G68 K69 R70 K71 V72 K75 I158 H159 S160 L161
• Binding residue (residue number reindexed from 1): R1 S2 K3 R4 S5 A11 T13 D14 K15 K16 R18 N20 E22 R23 F25 D45 R47 T48 L51 Q52 R55 M65 G66 K67 R68 K69 V70 K73 I156 H157 S158 L159

Gene Ontology

Molecular Function

• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0000055 ribosomal large subunit export from nucleus
• GO:0000956 nuclear-transcribed mRNA catabolic process
• GO:0006364 rRNA processing
• GO:0030490 maturation of SSU-rRNA
• GO:0042254 ribosome biogenesis
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0030687 preribosome, large subunit precursor
• GO:0032040 small-subunit processome

External links

• PDB: RCSB:7u0h, PDBe:7u0h, PDBj:7u0h
• PDBsum: 7u0h
• PubMed: 36482249
• UniProt: P33201|MRT4_YEAST Ribosome assembly factor MRT4 (Gene Name=MRT4)