Structure of PDB 8i9y Chain Lg Binding Site BS01

Receptor Information

>8i9y Chain Lg (length=117) Species: 759272 (Thermochaetoides thermophila DSM 1495)

PTRVTYRRRNPYNTTSNRTRVIKTPGGQLRVLHIKKRGTAPKCGDCGIKL
PGIPALRPREYATISKPKKTVQRAYGGSRCGNCVRDRIIRAFLIEEQKIV
KKVLKEQSQAEKKASKK

Ligand information

>8i9y Chain C1 (length=2609)

uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaggugagagc
uucggcgcaucaucgaccgauccugauguauucggauggauuugaguagg
agcguuaagccuuggacccgaaagauggugaacuaugcuuggauagggug
aagccagaggaaacucugguggaggcucgcugacgugcaagaucgucaaa
ucugagcaugggggcgaaagacuaaccaucuaguagcugguuaccgccga
aguuucccucaggauagcagugucgaccuucaguuuuaugagguaaagcg
aaugaacuuuaaauauguaagaagcccuuguuacuuaacugaacgugggc
auucgaauguaucgacacuagugggccauuuuugguaagcagaacuggcg
augcgggaugaaccgaacgcgggguuaaggugccggaguggacgcucauc
agacaccacaaaaggcguuaguacaucuugacagcaggacgguggccaug
gaagucggaauccgcuaaggacuguguaacaacucaccugccgaauguac
uagcccugaaaauggauggcgcucaagcgucccacccauaccccgcccuc
aggguagaaacgaugcccugaggaguaggcggccguggaggucagugacg
aagccuagggcgugagcccgggucgaacggccucuagugcagaucuuggu
gguaguagcaaauacuucaaugagaacuugaaggaccgaaguggggaaag
guuccaugugaacagcgguuggacauggguuagucgauccuaagccauag
ggaaguuccguuucaaaggggcacucgugccccguguggcgaaagggaag
ccgguuaauauuccggcaccuggauguggguuuugcgcggcaacgcaacu
gaacgcggagacgacggcgggggccccgggcagaguucucuuuucuucuu
aacggucuaucacccuggaaacaguuugucuggagauaggguuuaauggc
cggaagagcccgacacuucugucggguccggugcgcucucgacgucccuu
gaaaauccgcgggagggaauaauucucacgccaggucguacucauaaccg
cagcagguccccaaggugaacagccucugguugauagaacaauguagaua
agggcugucccuaucuacuaucuagcgaaaccacagccaagggaacgggc
uuggcaaaaucagcggggaaagaagacccuguugagcuugacucuaguuu
gacauugugaaaagacauaggagguguagaauaggugggagcuucggcgc
cagugaaauaccacuacuccuauuguuuuuuuacuuauucaaugugaaga
cauugucagguggggaguuccuuuagucccucgaaauuugaggcuagagg
agaaaaguuaccacagggauaacuggcuuguggcggccaagcguagcgac
gucgcuuuuuggaugcggcucuuccuaucauaccgaagcagaauucggua
agcguuggauuguucacccacuaauagggaacgugagcuggaccgucgug
agacagguuagucccuacugaugaacucgucgcaaugguaauucagcuua
guacgagaggaaccgcugauucagauaauugguuuuugcgguuguccgac
cgggcagugccgcgaagcuaccaucugcuggauaauggcugaacgccucu
aagucagaauccaugccagaacgcgacgauacuacccgcacguuguagac
guauaagaauaggcuccggccucguauccuagcaggcgauuccuccgccg
gccucgaaguggccgucgguaauucgcguauugcaauuuagacacgcgcg
ggaucaaauccuuugcagacgacuuagaugugcgaaaggguccuguaagc
aguagaguagccuuguuguuacgaucugcugaggguaagcccuccuucgc
cuagauuuc

........................<<<<<<.....<<....>>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<....>>>.>>.......>>....
<<<<<.<<<<<<<<<..<<<<<<..<<....<<<<......>>>>.((..
....<<<.....))>>>....>>..>>>.>>>..>>>>....>>>>>>>>
.>>........<<<<<<<........>>>>>>>.....<<<<<<......
>>>>>>..>>>..................................<<...
.>>...............<<<<....>>>>....................
..............<<<<.<<<<<<.<...<<.<<<<<<<<<.....<<<
<<<....>>>>>>......>>>>>>>>>.>>.<<<<<<<.<<<<<<<<<<
<<<<<.......<<<<<<<<......<<<<<....>>>>>.......>>>
>>>>>......>>>>>>>>>>>>>>>........<<...>>.....>>>>
>>>....>>>>>>>.>>>>..<<<<........>>>><<<<<<....<<<
<<<<<.<<<<..<<<..<<<<<.....>>>>>..>>>....<<<<<..<<
....>>...>>>>>.<<<<<<<<....<....>....>>>.>>>.>>...
.>>>>.>>>>>>>>..<<.<...<<<<<<...<.<<<<<<<<<..<<<<.
..<<<<<<<....>>>>>>>...>.>>>..<<<<<........>>>>>..
>>>>>>>>>>.<<.<....>.>>.>>>>>>......>.>>...<<<<<..
..<.<<<....>>>.><<<<<<<<<<....<<.<<<<<<<.....<<<..
......>>.>.....>>>>>...<<<<.<<<<.<......>>>>>.>>>>
.....>>>>..>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>.
...<<<......>>>...<<<<<<<...<<<((......<<<<<<.....
<<..........<<<.<<<<<<<<<<.......<<<<<.<<<...<<...
......>>...>>>.........<<......>>...>>>>>...>>>>>>
>>>>>>>...........)).>>...>>>>>>.>>>...>>>>>>><<<<
<<<<<.........>>>>>>>>>....>>>>>.<.<<<<<<<<.<<....
..<<<<.<<<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>>
<<.....<<.....<<<<<<.......>>>>>><<<<.....<<<<<.<<
...<<<<<<...<<.....>>.>>>>>>....((<<<<<<...<<<...<
<<....>>>........<<<<<......>>>>>....>>>....>>...<
<<<<........>>>>>))<<<<.<<<<.<<<....<<<....>>>....
...<<<<<<...<<<<.<<<<<<<<<<<<<.<<<<...((..>>>>.><.
..<<<<<....<<<<<<....<<<.....>>>....>>>>>>.....>>>
>>....><<<<<<<<....>>>>>>>>>>>>.>.>>>>>>>.>>>>....
.....>>>>>>.........>>>...>>>>>>>>>>>>..>>.....<<.
.....>>>>>>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<.
<<<......>>>>>>>>>..>>>>>>....>>....<<<<<........>
>>>>....<<<<<..<<<........<<<<<<.<<<<<<.<<<<<.<<<<
<<<<..<<<<<<<<<<<<<<<<<..........<<<<<..<<....>>..
..........>>>>>.>>>>>>>.>>>>>>>>>>...<<<<...>>>>..
...>>>>>>>>..>>>>>.<<<<<<<..<<<<<<...>>>>>>>>>>>>>
....>>>>>.>.>>>>>>.............<<<<<<...<<...>>...
>>>>>>.....((...<<<<<<<<<<..<.<<<<<<<......>>>>>>>
...>.<<<.....))..>>>.....>>>>>....>>>>>.<<<<<<<...
.>>>.>>>>....>>>.>>>>>....<<<<<<<..<<<<.<.<<<<<...
..............>>>>>.><<<<<...<<<<....<<<<<<<<<<)).
.>>>>>..>>>>>...>>>>..>>>>>.<<<<...<<<<<..........
.>>>>>...>>>>.>>>>....>>>>>>>.....<<<<<.<<.<<<....
..<<.......<<<....>>>....>>........<<<<.....<<<.<<
<<<.......>>>>>.>>>....>>>>..............>>>>>.>>>
>>...<<<<<<<.............>>....<<<<<<<<<.<<<....<<
<<.<..<<<<<......>>>>>..>>>>>...>>>....>>>>..>>>>>
...>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8i9y Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): R5 V6 T7 Y8 R9 R10 R11 P13 Y14 T16 T17 S18 R22 K25 T26 P27 G28 R32 I36 K37 K38 R39 T41 P43 K44 I50 K51 P53 G54 R59 P60 R61 A64 S67 K68 P69 K71 T72 V73 Q74 R75 Y77 G78 G79 R81 N84
• Binding residue (residue number reindexed from 1): R3 V4 T5 Y6 R7 R8 R9 P11 Y12 T14 T15 S16 R20 K23 T24 P25 G26 R30 I34 K35 K36 R37 T39 P41 K42 I48 K49 P51 G52 R57 P58 R59 A62 S65 K66 P67 K69 T70 V71 Q72 R73 Y75 G76 G77 R79 N82

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8i9y, PDBe:8i9y, PDBj:8i9y
• PDBsum: 8i9y
• PubMed: 37129998
• UniProt: G0SFN0