Structure of PDB 3j78 Chain 83 Binding Site BS01

Receptor Information

>3j78 Chain 83 (length=106) Species: 4932 (Saccharomyces cerevisiae)

AESHRLYVKGKHLSYQRSKRVNNPNVSLIKIEGVATPQDAQFYLGKRIAY
VYRASKEVRGSKIRVMWGKVTRTHGNSGVVRATFRNNLPAKTFGASVRIF
LYPSNI

Ligand information

>3j78 Chain 2S (length=3302)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
uuucacuggccagcaucaguuuugguggcaggauaaauccauaggaaugu
agcuugccucgguaaguauuauagccugugggaauacugccagcugggac
ugaggacugcgacguaagucaaggaugcuggcauaaugguuauaugccgc
ccgucuugaaacacggaccaaggagucuaacgucuaugcgaguguuuggg
uguaaaacccauacgcguaaugaaagugaacguagguuggggccucgcaa
gaggugcacaaucgaccgauccugaugucuucggauggauuugaguaaga
gcauagcuguugggacccgaaagauggugaacuaugccugaauaggguga
agccagaggaaacucugguggaggcucguagcgguucugacgugcaaauc
gaucgucgaauuuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguuccugccgaaguuucccucaggauagcagaagcucguaucaguu
uuaugagguaaagcgaaugauuagagguuccggggucgaaaugaccuuga
ccuauucucaaacuuuaaauauguaagaaguccuuguuacuuaauugaac
guggacauuugaaugaagagcuuuuagugggccauuuuugguaagcagaa
cuggcgaugcgggaugaaccgaacguagaguuaaggugccggaauacacg
cucaucagacaccacaaaagguguuaguucaucuagacagccggacggug
gccauggaagucggaauccgcuaaggaguguguaacaacucaccggccga
augaacuagcccugaaaauggauggcgcucaagcguguuaccuauacucu
accgucaggguugauaugaugcccugacgaguaggcaggcguggagguca
gugacgaagccuagaccguaaggucgggucgaacggccucuagugcagau
cuuggugguaguagcaaauauucaaaugagaacuuugaagacugaagugg
ggaaagguuccacgucaacagcaguuggacguggguuagucgauccuaag
agauggggaagcuccguuucaaaggccugauuuuaugcaggccaccaucg
aaagggaauccgguuaagauuccggaaccuggauauggauucuucacggu
aacguaacugaauguggagacgucggcgcgagcccugggaggaguuaucu
uuucuucuuaacagcuuaucaccccggaauugguuuauccggagaugggg
ucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgcuugug
acggcccgugaaaauccacaggaaggaauaguuuucaugccaggucguac
ugauaaccgcagcaggucuccaaggugaacagccucuaguugauagaaua
auguagauaagggaagucggcaaaauagauccguaacuucgggauaagga
uuggcucuaagggucggguagugagggccuuggucagacgcagcgggccu
uguuguagacggccuugguaggucucuuguagaccgucgcuugcuacaac
gaucaacuuagaacugguacggacaaggggaaucugacugucuaauuaaa
acauagcauugcgauggucagaaagugauguugacgcaaugugauuucug
cccagugcucugaaugucaaagugaagaaauucaaccaagcgcggguaaa
cggcgggaguaacuaugacucucuuaagguagccaaaugccucgucaucu
aauuagugacgcgcaugaauggauuaacgagauucccacugucccuaucu
acuaucuagcgaaaccacagccaagggaacgggcuuggcagaaucagcgg
ggaaagaagacccuguugagcuugacucuaguuugacauugugaagagac
auagaggguguagaauaagugggagcuucggcgccagugaaauaccacua
ccuuuauaguuucuuuacuuauucaaugaagcggagcuggaauucauuuu
ccacguucuagcauucaaggucccauucggggcugauccggguugaagac
auugucagguggggaguuuggcuggggcggcacaucuguuaaacgauaac
gcagauguccuaaggggggcucauggagaacagaaaucuccaguagaaca
aaaggguaaaagcccccuugauuuugauuuucagugugaauacaaaccau
gaaaguguggccuaucgauccuuuagucccucggaauuugaggcuagagg
ugccagaaaaguuaccacagggauaacuggcuuguggcagucaagcguuc
auagcgacauugcuuuuugauucuucgaugucggcucuuccuaucauacc
gaagcagaauucgguaagcguuggauuguucacccacuaauagggaacgu
gagcuggguuuagaccgucgugagacagguuaguuuuacccuacugauga
auguuaccgcaauaguaauugaacuuaguacgagaggaacaguucauucg
gauaauugguuuuugcggcugucugaucaggcauugccgcgaagcuacca
uccgcuggauuauggcugaacgccucuaagucagaauccaugcuagaacg
cggugauuucuuugcuccacacaauauagauggauacgaauaaggcgucc
uuguggcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaa
aggccuugggugcuugcuggcgaauugcaaugucauuuugcguggggaua
aaucauuuguauacgacuuagauguacaacgggguauuguaagcaguaga
guagccuuguuguuacgaucugcugagauuaagccuuuguugucugauuu
gu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3j78 Structures of Yeast 80S Ribosome-tRNA Complexes in the Rotated and Nonrotated Conformations.
• Resolution: 6.3 Å
• Binding residue (original residue number in PDB): A2 E3 S4 H5 Y8 R18 S19 K20 R21 N23 P25 Q42 G46 R54 S56 K57 R60 S62 R65 V66 W68 K70 T72 R73 H75 N77 S78 R86 N88 P90 K92 R99
• Binding residue (residue number reindexed from 1): A1 E2 S3 H4 Y7 R17 S18 K19 R20 N22 P24 Q41 G45 R53 S55 K56 R59 S61 R64 V65 W67 K69 T71 R72 H74 N76 S77 R85 N87 P89 K91 R98

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:3j78, PDBe:3j78, PDBj:3j78
• PDBsum: 3j78
• PubMed: 25043550
• UniProt: P05744|RL33A_YEAST Large ribosomal subunit protein eL33A (Gene Name=RPL33A)