Structure of PDB 7uqz Chain f Binding Site BS01

Receptor Information

>7uqz Chain f (length=106) Species: 1247190 (Saccharomyces cerevisiae BY4741)

AESHRLYVKGKHLSYQRSKRVNNPNVSLIKIEGVATPQDAQFYLGKRIAY
VYRASKEVRGSKIRVMWGKVTRTHGNSGVVRATFRNNLPAKTFGASVRIF
LYPSNI

Ligand information

>7uqz 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: 7uqz rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
• Resolution: 2.44 Å
• Binding residue (original residue number in PDB): A2 E3 S4 H5 R6 Y8 K10 Q17 R18 S19 K20 R21 V22 N23 Q42 L45 G46 R48 Y53 R54 A55 K57 R60 S62 K63 I64 R65 V66 M67 W68 K70 T72 R73 H75 G76 N77 S78 R82 R86 N87 N88 P90 A91 K92 F94 A96 S97 R99 N106
• Binding residue (residue number reindexed from 1): A1 E2 S3 H4 R5 Y7 K9 Q16 R17 S18 K19 R20 V21 N22 Q41 L44 G45 R47 Y52 R53 A54 K56 R59 S61 K62 I63 R64 V65 M66 W67 K69 T71 R72 H74 G75 N76 S77 R81 R85 N86 N87 P89 A90 K91 F93 A95 S96 R98 N105

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

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

External links

• PDB: RCSB:7uqz, PDBe:7uqz, PDBj:7uqz
• PDBsum: 7uqz
• PubMed: 36864048
• UniProt: P05744|RL33A_YEAST Large ribosomal subunit protein eL33A (Gene Name=RPL33A)