Structure of PDB 7uoo Chain g Binding Site BS01

Receptor Information

>7uoo Chain g (length=112) Species: 1247190 (Saccharomyces cerevisiae BY4741)

AQRVTFRRRNPYNTRSNKIKVVKTPGGILRAQHVKKLATRPKCGDCGSAL
QGISTLRPRQYATVSKTHKTVSRAYGGSRCANCVKERIIRAFLIEEQKIV
KKVVKEQTEAAK

Ligand information

>7uoo Chain 1 (length=2991)

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
agcagaauucgguaagcguuggauuguucacccacuaauagggaacggcu
ggguuuagaccgucgugagacagguuaguuuuacccuacugaugaauguu
accgcaauaguaauugaacuuaguacgagaggaacaguucauucggauaa
uugguuuuugcggcugucugaucaggcauugccgcgaagcuaccauccgc
uggauuauggcugaacgccucuaagucagaauccaugcuagaacgcggug
auuucuuugcuccacacaauauagauggauacgaauaaggcguccuugug
gcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggcc
uugggugcuugcuggcgaauugcaaugucauuuugcguggggauaaauca
uuuguauacgacuuagauguacaacgggguauuguaagcaguagaguagc
guuacgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7uoo rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
• Resolution: 2.34 Å
• Binding residue (original residue number in PDB): A2 R4 V5 T6 F7 R8 R9 R10 N11 P12 Y13 N14 T15 R16 S17 K24 T25 P26 G27 R31 K36 K37 L38 T40 R41 P42 K43 Q52 G53 I54 S55 T56 P59 R60 Y62 A63 T64 S66 K67 T68 K70 T71 S73 R74 Y76 G77 S79 N83 R88 R91 A92 I95 E96 Q98 K99
• Binding residue (residue number reindexed from 1): A1 R3 V4 T5 F6 R7 R8 R9 N10 P11 Y12 N13 T14 R15 S16 K23 T24 P25 G26 R30 K35 K36 L37 T39 R40 P41 K42 Q51 G52 I53 S54 T55 P58 R59 Y61 A62 T63 S65 K66 T67 K69 T70 S72 R73 Y75 G76 S78 N82 R87 R90 A91 I94 E95 Q97 K98

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042254 ribosome biogenesis

Cellular Component

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

External links

• PDB: RCSB:7uoo, PDBe:7uoo, PDBj:7uoo
• PDBsum: 7uoo
• PubMed: 36864048
• UniProt: P87262|RL34A_YEAST Large ribosomal subunit protein eL34A (Gene Name=RPL34A)