Structure of PDB 7u0h Chain j Binding Site BS01

Receptor Information

>7u0h Chain j (length=87) Species: 1247190 (Saccharomyces cerevisiae BY4741)

GKGTPSFGKRHNKSHTLCNRCGRRSFHVQKKTCSSCGYPAAKTRSYNWGA
KAKRRHTTGTGRMRYLKHVSRRFKNGFQTGSASKASA

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): G2 K3 G4 T5 P6 F8 G9 K10 R11 H12 N13 S15 H16 R24 R25 S26 H28 Q30 K31 S35 K43 T44 R45 Y47 N48 W49 K52 R55 R56 T59 K75
• Binding residue (residue number reindexed from 1): G1 K2 G3 T4 P5 F7 G8 K9 R10 H11 N12 S14 H15 R23 R24 S25 H27 Q29 K30 S34 K42 T43 R44 Y46 N47 W48 K51 R54 R55 T58 K74

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0000448 cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0030687 preribosome, large subunit precursor
• GO:0044391 ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7u0h, PDBe:7u0h, PDBj:7u0h
• PDBsum: 7u0h
• PubMed: 36482249
• UniProt: P49166|RL37A_YEAST Large ribosomal subunit protein eL37A (Gene Name=RPL37A)