Structure of PDB 7v08 Chain u Binding Site BS01

Receptor Information

>7v08 Chain u (length=150) Species: 1247190 (Saccharomyces cerevisiae BY4741)

MRIYQCHFCSSPCYPGHGIMFVRNDAKEFRFCRSKCHKAFKQRRNPRKLK
WTKAFRKAAGKELAVDSTLTFAQRRNVPVRYNRELVATTLKAMARIEEIR
QKRERAFYKNRMRGNKEKDFLRDKKLVESNPELLRIREVEIARKLAKEQE

Ligand information

>7v08 Chain 1 (length=2986)

guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaac
aaguacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaag
uacgugaaauuguugaaagggaagggcauuugaucagacaggccagcauc
aguuuugguggcaggauaaauccauaggaauguagcuugccucgguaagu
auuauagccugugggaauacugccagcugggacugaggacugcgacguaa
gucaaggaugcuggcauaaugguuauaugccgcccgucuugaaacacgga
ccaaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcg
uaaugaaagugaacguagguuggggccucgcaagaggugcacaaucgacc
gauccugaugucuucggauggauuugaguaagagcauagcuguugggacc
cgaaagauggugaacuaugccugaauagggugaagccagaggaaacucug
guggaggcucguagcgguucugacgugcaaaucgaucgucgaauuugggu
auaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaag
uuucccucaggauagcagaagcucguaucaguuuuaugaguguaagaagu
ccuuguuugaacguggacauuugaaugaagagcuuuuagugggccauuuu
ugguaagcagaacuggcgaugcgggaugaaccgaacguagaguuaaggug
ccggaauacacgcucaucagacaccacaaaagguguuaguucaucuagac
agccggacgguggccauggaagucggaauccgcuaaggaguguguaacaa
cucaccggccgaaugaacuagcccugaaaauggauggcgcucaagcgugu
uaccuauacucuaccgucaggguugaugcccugacgaguaggcaggcgug
gaggucagugacgaagccuagaccguaaggucgggucgaacggccucuag
ugcagaucuuggugguaguagcaaauauucaaaugagaacuuugaagacu
gaaguggggaaagguuccacgucaacagcaguuggacguggguuagucga
uccuaagagauggggaagcuccguuucaaaggccugauuuuaugcaggcc
accaucgaaagggaauccgguuaagauuccggaaccuggauauggauucu
ucacgguaacguaacugaauguggagacgucggcgcgagcccugggagga
guuaucuuuucuucuuaacagcuuaucaccccggaauugguuuauccgga
gauggggucuuauggcuggaagaggccagcaccuuugcuggcuccggugc
gcuugugacggcccgugaaaauccacaggaaggaauaguuuucaugccag
gucguacugauaaccgcagcaggucuccaaggugaacagccucuaguuga
uagaauaauguagauaagggaagucggcaaaauagauccguaacuucggg
auaaggauuggcucuaagggucggacgaucaacuuagaacugguacggac
aaggggaaucugacugucuaauuaaaacauagcauugcgauggucagaaa
gugauguugacgcaaugugauuucugcccagugcucugaaugucaaagug
aagaaauucaaccaagcgcggguaaacggcgggaguacucucuuaaggua
gccaauggauuaacgagauucccacugucccuaucuacuaucuagcgaaa
ccacagccaagggaacgggcuuggcagaaucagcggggaaagaagacccu
guugagcuugacucuaguuugacauugugaagagacauaguuucuuuacu
uauucaaugaagcggagcuggauccacguucuagcauucaaggucccauu
cggggcugauccggguugaagacauugucagguggggaguuuggcugggg
cggcacauguccuaaggggggcucauggagaacagaaaucuccaguagaa
caaaaggguaaaagcccccuugauuuugauuuucagugugaauacaaacc
augaaaguguggccuaucgauccuuuagucccucggaauuugaggcuaga
ggugccagaaaaguuaccacagggauaacuggcuuguggcagucaagcgu
uauagcgacauugcuuuuugauucgaugucggcucuuccuaucauaccga
agcagaauucgguaagcguuggauacccacuaauagggaacggcuggguu
uagaccgucgugagacagguuaguuuuacccuacugaugaauguuaccgc
aauaguaauugaacuuaguacgagaggaacaguucauucggauaauuggu
uuuugcggcugucugaucaggcauugccgcgaagcuaccauccgcuggau
uauggcugaacgccucuaagucagaauccaugcuagaacgcggugauuuc
uuugcuccacacaauauagauggauacgaauaaggcguccuuguggcguc
gcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuuggg
ugcuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuugu
auacgacuuagauguacaacgggguauuguaagcaguagaguagcguuac
gaucugcugagauuaagccuuuguugucugauuugu

..........................<<<<<<.....<<....>>.....
.>>>>>.>.........<<....>>..<<<<<......<<.....>>...
..>>>>>..[[[..<<.......<<.<<<<<<...>>>>>>.>>......
.>>....<<<<<<.<<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>>..>>>>>>>..
..>>>>>>>>>>>........<<<<<<<.<....>.>>>>>>>.....((
(((..<<<<<<)))))..]]].............................
.....<<....>>...............<<<<....>>>>..........
........................<<<<<.<<<<<......<<<<<<<.<
<<<<<<<<<<<<<<.....<<<<<<<<<......<<<<<......>>>>>
.......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....
>>>.....>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><
<<<<<...<<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>.
..<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<
<<<<<..............>>>>.>>.>>....>>>>>>.>>>>>>>.<<
.<...<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>
>>.....>>>...<<<<.<<.<<........>>>>>>>>....>>>>>>>
>>...<<.......>>......>>>>>>......>.>>..<<<<<<....
..<<<....>>>..<<<<<<<<<<...<<<.<<<<<<<..>>>>>...<<
<<.<<<....>>>.>>>>.....>>>>>.>>>>>>>>.>>..<<<<.<<<
<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<..<<<<(
((.....<<<<<<......<..........<<<.<<<<<<<<<<......
.<<<<<.<<<...<<.........>>...>>>.........<<......>
>...>>>>>...>>>>>>>>>>>>>..........))).>....>>>>>>
.>>>>..>>>>>>><<<<<<<<<....>>>>>>>>>....>>>>>><.<<
<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>>>.
.>.....>>>>>><<.....<<.....<<<<<<.......>>>>>><<<<
.....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<
<<<...<<....<<<....>>>........<<<<<<........>>>>>>
....>>....>>...<<<<<........>>>>>))<<<<.<<<<<<<...
..<<<....>>>...<...<<<<<<...<<<<.<<<<<<<.<<<<<<<<<
<..{{{..>>>>>><...<<<<<....<<<<<<....<<<.....>>>..
..>>>>>>.....>>>>>....><<<<<<<......>>>>>>>>>>>...
>>>>>>>.>>>>.........>>>>>>...>......>>>..>>>>>>>>
>>>>..>>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..
<<<<.....<<<<<<<.<<...............<<<<<.....<..>..
....>>>>><<.<<<<<<<<<<<..>>>>>..>>>>>>.>>.........
...<<<<<<<<<..<<<.........>>>..<<<<<<<....<<<<....
.>>>>......>>>>>>>.......<<<..<<<<<<.....<<....<<<
<<....>>>>.>...>>..>>>>..>>>>><<<<<..>>>>>........
..<<.>>......>>.>>>>>>>.....>>.>>>>>>>..>>>>>>....
>>....<<<<<........>>>>>....[[[[[..[[[........((((
(([[[.[[..<<<<<.<<<<<<<<..<<<<<<<<<.....>>>>>>>>>.
..<<<<<.....<<<<...<<..>>................<<<<<<...
.>>>>>>..>>>>..>>>>>.....>>>>>>>>..>>>>>.......<<<
<<<..<..>..>>..<<<<<<<...<<<<<<.......>>>>>>.....<
<......>>....>>>>>>>....<<<<.<.<<<.....>>>.>>>>><<
<<....>>>.>>>>>.[[...[[.((((..((((.>>>>>>)))))))).
]].....]]..]]]]]..)))))).............<<<<<<...<<..
....>>...>>>>>>.............<<<<<..<<<<<..<.<<<<<<
<......>>>>>>>...>.<<<....>>>.....>>>>>...>>>>>...
..<<<<<<<....>>>.>>>>........]]].]]]]]....<<<<<<<<
..<<<<.<.<<<<<<...............>>>>>>.><<<<<...<<<<
....<<<<<<<<<<}}}.>>>>>..>>>>>...>>>>..>>>>>.<<<<.
..<<<<<...........>>>>>...>>>>.>>>>....>>>>>>>>...
.....<<<<<.<.<.......<<..........<<<<<<.....>>>>>>
......>>.......<<<<<<...<<<<<.<..<<<......>>>..>.>
>>>>.>>>>>>...............>..>.>>>.>>..<<<<<<<....
.........>.....<<<<<<<<<.<<<....<<<<.<..<<<<..>>>>
..>>>>>...>>>....>>>>.>>>>>.>>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7v08 rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
• Resolution: 2.36 Å
• Binding residue (original residue number in PDB): G16 G18 S34 K35 K38 Q42 R44 K50 W51 K53 R56 K61 R111 M112 N115
• Binding residue (residue number reindexed from 1): G16 G18 S34 K35 K38 Q42 R44 K50 W51 K53 R56 K61 R111 M112 N115

Gene Ontology

Molecular Function

• GO:0001671 ATPase activator activity
• GO:0051117 ATPase binding

Biological Process

• GO:0032781 positive regulation of ATP-dependent activity
• GO:0042254 ribosome biogenesis
• GO:0042273 ribosomal large subunit biogenesis
• GO:1902626 assembly of large subunit precursor of preribosome

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:7v08, PDBe:7v08, PDBj:7v08
• PDBsum: 7v08
• PubMed: 36864048
• UniProt: Q07915|RLP24_YEAST Ribosome biogenesis protein RLP24 (Gene Name=RLP24)