Structure of PDB 8hfr Chain ia Binding Site BS01

Receptor Information

>8hfr Chain ia (length=96) Species: 559292 (Saccharomyces cerevisiae S288C)

VKTGIAIGLNKGKKVTSMTPAPKISYKKGAASNRTKFVRSLVREIAGLSP
YERRLIDLIRNSGEKRARKVAKKRLGSFTRAKAKVEEMNNIIAASR

Ligand information

>8hfr Chain 1e (length=3274)

ugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaag
cggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagcg
gcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaauu
uggagagggcaacuuuggggccguuccuugucuauguuccuuggaacagg
acgucauagagggugagaaucccguguggcgaggagugcgguucuuugua
aagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggug
guaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaag
uacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaaguac
gugaaauuguugaaagggaagggcauuugaucagacgccagcaucaguuu
ugguggcaggauaaauccauaggaauguagcuugccucgguaaguauuau
agccugugggaauacugccagcugggacugaggacugcgacguaagucaa
ggaugcuggcauaaugguuauaugccgcccgucuugaaacacggaccaag
gagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaaug
aaagugaacguagguuggggccucgcaagaggugcacaaucgaccgaucc
ugaugucuucggauggauuugaguaagagcauagcuguugggacccgaaa
gauggugaacuaugccugaauagggugaagccagaggaaacucuggugga
ggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguauagg
ggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuucc
cucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaugauu
agagguuccggggucgaaaugaccuugaccuauucucaaacuuuaaauau
guaagaaguccuuguuacuuaauugaacguggacauuugaaugaagagcu
uuuagugggccauuuuugguaagcagaacuggcgaugcgggaugaaccga
acguagaguuaaggugccggaauacacgcucaucagacaccacaaaaggu
guuaguucaucuagacagccggacgguggccauggaagucggaauccgcu
aaggaguguguaacaacucaccggccgaaugaacuagcccugaaaaugga
uggcgcucaagcguguuaccuauacucuaccgucaggguugauaugaugc
ccugacgaguaggcaggcguggaggucagugacgaagccuagaccguaag
gucgggucgaacggccucuagugcagaucuuggugguaguagcaaauauu
caaaugagaacuuugaagacugaaguggggaaagguuccacgucaacagc
aguuggacguggguuagucgauccuaagagauggggaagcuccguuucaa
aggccugauuuuaugcaggccaccaucgaaagggaauccgguuaagauuc
cggaaccuggauauggauucuucacgguaacguaacugaauguggagacg
ucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuaucac
cccggaauugguuuauccggagauggggucuuauggcuggaagaggccag
caccuuugcuggcuccggugcgcuugugacggcccgugaaaauccacagg
aaggaauaguuuucaugccaggucguacugauaaccgcagcaggucucca
aggugaacagccucuaguugauagaauaauguagauaagggaagucggca
aaauagauccguaacuucgggauaaggauuggcucuaagggucggguagu
gagggccuuggucagacgcagcgggcgugcuuguggacugcuuggugggg
cuugcucugcuaggcggacuacuugcgugccuuguuguagacggccuugg
uaggucucuuguagaccgucgcuugcuacaauuaacgaucaacuuagaac
ugguacggacaaggggaaucugacugucuaauuaaaacauagcauugcga
uggucagaaagugauguugacgcaaugugauuucugcccagugcucugaa
ugucaaagugaagaaauucaaccaagcgcggguaaacggcguggauuaac
gagauucccacugucccuaucuacuaucuagcgaaaccacagccaaggga
acgggcuuggcagaaucagcggggaaagaagacccuguugagcuugacuc
uaguuugacauugugaagagacauagaggguguagaauaagugggagcuu
cggcgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaaug
aagcggagcuggaauucauuuuccacguucuagcauucaaggucccauuc
ggggcugauccggguugaagacauugucagguggggaguuuggcuggggc
ggcacaucuguuaaacgauaacgcagauguccuaaggggggcucauggag
aacagaaaucuccaguagaacaaaaggguaaaagcccccuugauuuugau
uuucagugugaauacaaaccaugaaaguguggccuaucgauccuuuaguc
ccucggaauuugaggcuagaggugccagaaaaguuaccacagggauaacu
ggcuuguggcagucaagcguucauagcgacauugcuuuuugauucuucga
ugucggcucuuccuaucauaccgaagcagaauucgguaagcguuggauug
uucacccacuaauagggaacgugagcuggguuuagaccgucgugagacag
guuaguuuuacccuacugaugaauguuaccgcaauaguaauugaacuuag
uacgagaggaacaguucauucggauaauugguuuuugcggcugucugauc
aggcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucua
agucagaauccaugcuagaacgcggugauuucuuugcuccacacaauaua
gauggauacgaauaaggcguccuuguggcgucgcugaaccauagcaggcu
agcaacggugcacuuggcggaaaggccuugggugcuugcuggcgaauugc
aaugucauuuugcguggggauaaaucauuuguauacgacuuagauguaca
acgggguauuguaagcaguagaguagccuuguuguuacgaucugcugaga
uuaagccuuuguugucugauuugu

.......................<<<<<<.....<<....>>......>>
>>>.>.........<<....>>..<<<<<......<<.....>>.....>
>>>>..<<<..<<.......<<.<<<<<<...>>>>>>.>>.......>>
....<<<<<<.<<<<<....<<<<<<<<<<<<<....<<<<......>>>
>.(.......<<<......)>>>..>.>>>>>>>>>..>>>........>
>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<<
..((((((>>>>>..>>>................................
..<<....>>...............<<<<....>>>>.............
.....................<<<<<.<<<<<....<<<<<<<.<<<<<<
<<<<<<<<<.....<<<<<<<<<......<<<<........>>>>.....
..>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>>..
...>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><<<<<<
....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...<<.
...>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<<<<
...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<..<
<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>...
..>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>...
<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.<<<
....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<.........
..........<<<<<.....>>>>>................>>>.....>
>>>>...<<<<.<<<<.<......>>>>>.>>>>.....>>>>>.>>>>>
>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>.
..<<<<<<<..<<<<(((.....<<<<<<.....<<..........<<<.
<<<<<<<<<<.......<<<<<.<<<...<<.........>>...>>>..
.......<<......>>...>>>>>...>>>>>>>>>>>>>.........
.))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.........>>
>>>>>>>....>>>>>><.<<<<<<<<.<<......<<<<.<<<<....>
>>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....<<.....<<
<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<<..
...>>.>>>>>>....((<<<<<<...<<....<<<....>>>.......
..<<..............>>.....>>....>>...<<<<<........>
>>>>))<<<<.<<<<<<<.....<<<....>>>.......<<<<<<...<
<<<.<<<<<<<.<<<<<<<<<<..[[[..>>>>>><...<<<<<....<<
<<<<....<<<.....>>>....>>>>>>.....>>>>>....><<<<<<
<<....>>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>..
........>>>..>>>>>>>>>>>>..>>.....<<......>>>>>>>.
<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.........<
.....<<<<<....<<..>>.....>>>>><<.<<<<<<<<.........
<<.....................<<<<<<<........<<<<.......<
.....>......>>>>........>>>>>>>...................
..<<<<<.....>>>>>.....>>..............>>..>>>>>>.>
>............<<<<<<<<<..<<<.........>>>..<<<<<<<..
..<<<<.....>>>>......>>>>>>>...<<<.<<<..<<<<<..<..
<<<.....<<<<....>>>>.....>>>>.>>>..>>>>>..>>>....>
>.>>>>>>>..>..>>.>>>>>>>..>>>>>>....>>....<<<<<...
.....>>>>>....<<<<<..<<<........<<<<<.<<<<<<..<<<<
<.<<<<<<<<..<<<<<<<<<<<<<<..<...........<<........
..................>>..>..>>>>.>>>>>>>>>>...<<<<<..
...<<<<..<<<<<......>>>>>...............<<<<<<....
>>>>>>..>>>>..>>>>>.....>>>>>>>>..>>>>>...<<<.....
>>>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<
<.......>>>>>>.....<<...(((>>....>>>>>>>...<<<.<<<
<<.......>>>>.>>>>.<<<....>>>.>>)))......<<<<<<<..
<<<<.))))))>>>>>>>>>>>.........>>>>..>>>>>>>......
........<<<<<....<.......>....>>>>>.............((
...<<<<.<<<<<<..<.<<<<<<<......>>>>>>>...>.<<<....
.))..>>>.....>>>>>..>...>>>>......<<<<<<<....>>>.>
>>>........>>>.>>>>>....<<<<<<<<..<<<<.<.<<<<<<...
............>>>>>>.><<<<<...<<<<....<<<<<<<<<<]]].
>>>>>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........
>>>>>...>>>>.>>>>....>>>>>>>>.......<<<<<..<<<....
...<<..........<<<<<<.....>>>>>>......>>.......<<<
<<<...<<<<<.<..<<<......>>>..>.>>>>>.>>>>>>.......
.........>>>..>>>>>..<<<<<.<.............>.....<<<
<<<<<<.<<<....<<<<.<..<<<<<......>>>>>..>>>>>...>>
>....>>>>.>>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8hfr Nuclear export of pre-60S particles through the nuclear pore complex.
• Resolution: 2.64 Å
• Binding residue (original residue number in PDB): G14 K15 I26 S27 K29 K30 G31 A32 S34 R41 Y53 R68 G78 R82
• Binding residue (residue number reindexed from 1): G12 K13 I24 S25 K27 K28 G29 A30 S32 R39 Y51 R66 G76 R80

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• 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:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8hfr, PDBe:8hfr, PDBj:8hfr
• PDBsum: 8hfr
• PubMed: 37258668
• UniProt: P05745|RL36A_YEAST Large ribosomal subunit protein eL36A (Gene Name=RPL36A)