Structure of PDB 8ia0 Chain LN Binding Site BS01

Receptor Information

>8ia0 Chain LN (length=183) Species: 759272 (Thermochaetoides thermophila DSM 1495)

GALKYLEELSKKKQSDVVRFLLRVRCWEYRQLNVIHRASRPSRPDKARRL
GYKAKQGYVIYRVRVRRGGRQLKYQRSLRATAEERVGRRCSNLRVLNSYW
VNQDSTYKYYEVILVDPNHKAIRRDPRINWICNPVHKHRECRGLTSTGKK
SRGLNKGHRFNKTRAGRRKTWKRHNTLSLWRYR

Ligand information

>8ia0 Chain C1 (length=2928)

uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaggugagagc
uucggcgcaucaucgaccgauccugauguauucggauggauuugaguagg
agcguuaagccuuggacccgaaagauggugaacuaugcuuggauagggug
aagccagaggaaacucugguggaggcucgcugacgugcaagaucgucaaa
ucugagcaugggggcgaaagacuaaccaucuaguagcugguuaccgccga
aguuucccucaggauagcagugucgaccuucaguuuuaugagguaaagcg
aaugaacuuuaaauauguaagaagcccuuguuacuuaacugaacgugggu
cgaauguaucgacacuagugggccauuuuugguaagcagaacuggcgaug
cgggaugaaccgaacgcgggguuaaggugccggaguggacgcucaucaga
caccacaaaaggcguuaguacaucuugacagcaggacgguggccauggaa
gucggaauccgcuaaggacuguguaacaacucaccugccgaauguacuag
cccugaaaauggauggcgcucaagcgucccacccauaccccgcccucagg
guagaaacgaugcccugaggaguaggcggccguggaggucagugacgaag
ccuagggcgugagcccgggucgaacggccucuagugcagaucuugguggu
aguagcaaauacuucaaugagaacuugaaggaccgaaguggggaaagguu
ccaugugaacagcgguuggacauggguuagucgauccuaagccauaggga
aguuccguuucaaaggggcacucgugccccguguggcgaaagggaagccg
guuaauauuccggcaccuggauguggguuuugcgcggcaacgcaacugaa
cgcggagacgacggcgggggccccgggcagaguucucuuuucuucuuaac
ggucuaucacccuggaaacaguuugucuggagauaggguuuaauggccgg
aagagcccgacacuucugucggguccggugcgcucucgacgucccuugaa
aauccgcgggagggaauaauucucacgccaggucguacucauaaccgcag
cagguccccaaggugaacagccucugguugauagaacaauguagauaagg
gaagucggcauccguaacuucgggaaaagggcucuaaggguugggcacgu
ugggcuuugggcggacgcccugggagcagagggccucuagccgggcaacc
ggccggcggcccucagcacccgggguugaagcccuuagcccggcgugcgg
uuaacaaccaacuuagaacugguacggacagggaaucugacgucuauagc
auugcgauggccagaaagugguguugacgcaaugugucugcccagugcuc
ugaaugucaaagugaagaaauucaaccaagcgcggguaaaaugccucguc
aucuaauuagugacgcgcauggauaacgagauucccacugucccuaucua
cuaucuagcgaaaccacagccaagggaacgggcuuggcaaaaucagcggg
gaagacccuguugagcuugacucuaguuugacauugugaaaagacauagg
agguguagaauaggugggagcuucggcgccagugaaauaccacuacuccu
auuguuuuuuuacuuauucaaugugaagacauugucagguggggaguucc
uuuagucccucgaaauuugaggcuagaggagaaaaguuaccacagggaua
acuggcuuguggcggccaagcguagcgacgucgcuucggcucuuccuauc
auaccgaagcagaauucgguaagcguuggauuguucacccacuaauaggg
aaagcuggggaccgucgugagacagguuagucccuacugaugaacucguc
gcaaugguaauucagcuuaguacgagaggaaccgcugauucagauaauug
guuuuugcgguuguccgaccgggcagugccgcgaagcuaccaucugcugg
auaauggcugaacgccucuaagucagaauccaugccagaacgcgacgaua
cuacccgcacguuguagacguauaagaauaggcuccggccucguauccua
gcaggcgauuccuccgccggccucgaaguggccgucgguaauucgcguau
ugcaauuuagacacgcgcgggaucaaauccuuugcagacgacuuagaugu
gcgaaaggguccuguaagcaguagaguagccuuguuguuacgaucugcug
aggguaagcccuccuucgccuagauuuc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8ia0 Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): G2 K5 E8 K12 K14 Q15 N34 V35 S40 R41 R44 K47 R49 R50 L51 K54 A55 K56 Q57 R67 R68 G69 K93 Y94 Q95 R96 L98 R105 R108 S111 N112 N117 Y127 K128 N138 H139 K140 R144 R147 W150 P154 V155 H156 K157 H158 C161 R162 L164 S166 K170 S171 R172 L174 K176 G177 H178 R179 F180 N181 K182 R187 R188 K189 W191 R193 H194 W200 R201 Y202 R203
• Binding residue (residue number reindexed from 1): G1 K4 E7 K11 K13 Q14 N33 V34 S39 R40 R43 K46 R48 R49 L50 K53 A54 K55 Q56 R66 R67 G68 K73 Y74 Q75 R76 L78 R85 R88 S91 N92 N97 Y107 K108 N118 H119 K120 R124 R127 W130 P134 V135 H136 K137 H138 C141 R142 L144 S146 K150 S151 R152 L154 K156 G157 H158 R159 F160 N161 K162 R167 R168 K169 W171 R173 H174 W180 R181 Y182 R183

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:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8ia0, PDBe:8ia0, PDBj:8ia0
• PDBsum: 8ia0
• PubMed: 37129998
• UniProt: G0RZ88