Structure of PDB 3j77 Chain 85 Binding Site BS01

Receptor Information

>3j77 Chain 85 (length=119) Species: 4932 (Saccharomyces cerevisiae)

AGVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRPSLPKIKTVRKSI
ACVLTVINEQQREAVRQLYKGKKYQPKDLRAKKTRALRRALTKFEASQVT
EKQRKKQIAFPQRKYAIKA

Ligand information

>3j77 Chain 2S (length=3287)

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
uguuguagacggccuugguagucgcuugcuacaacgaucaacuuagaacu
gguacggacaaggggaaucugacugucuaauuaaaacauagcauugcgau
ggucagaaagugauguugacgcaaugugauuucugcccagugcucugaau
gucaaagugaagaaauucaaccaagcgcggguaaacggcgggaguaacua
ugacucucuuaagguagccaaaugccucgucaucuaauuagugacgcgca
ugaauggauuaacgagauucccacugucccuaucuacuaucuagcgaaac
cacagccaagggaacgggcuuggcagaaucagcggggaaagaagacccug
uugagcuugacucuaguuugacauugugaagagacauagaggguguagaa
uaagugggagcuucggcgccagugaaauaccacuaccuuuauaguuucuu
uacuuauucaaugaagcggagcuggaauucauuuuccacguucuagcauu
caaggucccauucggggcugauccggguugaagacauugucaggugggga
guuuggcuggggcggcacaucuguuaaacgauaacgcagauguccuaagg
ggggcucauggagaacagaaaucuccaguagaacaaaaggguaaaagccc
ccuugauuuugauuuucagugugaauacaaaccaugaaaguguggccuau
cgauccuuuagucccucggaauuugaggcuagaggugccagaaaaguuac
cacagggauaacuggcuuguggcagucaagcguucauagcgacauugcuu
uuugauucuucgaugucggcucuuccuaucauaccgaagcagaauucggu
aagcguuggauuguucacccacuaauagggaacgugagcuggguuuagac
cgucgugagacagguuaguuuuacccuacugaugaauguuaccgcaauag
uaauugaacuuaguacgagaggaacaguucauucggauaauugguuuuug
cggcugucugaucaggcauugccgcgaagcuaccauccgcuggauuaugg
cugaacgccucuaagucagaauccaugcuagaacgcggugauuucuuugc
uccacacaauauagauggauacgaauaaggcguccuuguggcgucgcuga
accauagcaggcuagcaacggugcacuuggcggaaaggccuugggugcuu
gcuggcgaauugcaaugucauuuugcguggggauaaaucauuuguauacg
acuuagauguacaacgggguauuguaagcaguagaguagccuuguuguua
cgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3j77 Structures of Yeast 80S Ribosome-tRNA Complexes in the Rotated and Nonrotated Conformations.
• Resolution: 6.2 Å
• Binding residue (original residue number in PDB): K74 Y75 K78 R86 R90 T93 F95 E96 K103 K106
• Binding residue (residue number reindexed from 1): K73 Y74 K77 R85 R89 T92 F94 E95 K102 K105

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000463 maturation of LSU-rRNA from 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:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:3j77, PDBe:3j77, PDBj:3j77
• PDBsum: 3j77
• PubMed: 25043550
• UniProt: P0CX84|RL35A_YEAST Large ribosomal subunit protein uL29A (Gene Name=RPL35A)