Structure of PDB 9f1d Chain Bp Binding Site BS01

Receptor Information
>9f1d Chain Bp (length=91) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRA
VGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKELKDQ
Ligand information
>9f1d Chain B5 (length=3706) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcgguggggcgcgggaaau
guggcguacggaagacccacuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcgugguccggccgugccggcg
gucucggcggaucuuucccgcuccccguuccuggggguggggucggcggg
ggaccgccccccggccggcgaccggccgccgccgggcgcauuuccaccgc
ggcggugcgccgcgaccggcuccgggacggcugggaaggccccggcgggg
aagguggcccggggggacgccucgccgccgucguccgcggcggcggcggg
cgcgaccccuccccggguguuacagccccgccccggcagcagcagcucgc
cgaaucccggggccgagggagcgagaccugugucgccgcgcucucccccc
ucgggggggccgggccgccccucccacggcgcgaccgcucggggcggacu
guccccagugcgccccgggcgugucacgccgucgggcucgggggaggcca
cggcgcgucgcgcgccggcgcgcgcgcgcgagcgagcgcacggggucggc
ggcgaugucggcuacccacccgacccgucuugaaacacggaccaaggagu
cuaacacgugcgcgagucgggggcucgcacgaaagccgccguggcgcaau
gaaggugaaggccggcggcggcgccgucgucggccgaggugggaucccga
ggcccuuccaguccgccgagggcgcaccaccggcccgucucgcccgccgc
gccggggagguggagcacgagcgcacguguuaggacccgaaagaugguga
acuaugccugggcagggcgaagccagaggaaacucugguggagguccgua
gcgguccugacgugcaaaucggucguccgaccuggguauaggggcgaaag
acuaaucgaaccaucuaguagcugguucccuccgaaguuucccucaggau
agcuggcgcucucgcaaccccgcaguuuuauccgguaaagcgaaugauua
gaggucuuggggccgaaacgaucucaaccuauucucaaacuuuaaauggg
uaagaagcccggcucgcuggcguggagccgggcguggaaugcgagugccu
agugggccacuuuugguaagcagaacuggcgcugcgggaugaaccgaacg
ccggguuaaggcgcccgaugccgacgcucaucagaccccagaaaaggugu
ugguugauauagacagcaggacgguggccauggaagucggaauccgcuaa
ggaguguguaacaacucaccugccgaaucaacuagcccugaaaauggaug
gcgcuggagcgucgggcccauacccggccgucgcuggcagucggcagagc
gagaaagagaguggagccgcggacgcuacgccgcgacgaguaggagggcc
gcugcggugagccuugaagccuagggcgcgggcccggguggagccgccgc
aggugcagaucuuggugguaguagcaaauauucaaacgagaacuuugaag
gccgaaguggagaaggguuccaugugaacagcaguugaacaugggucagu
cgguccugagagaugggcgagcgccguuccgaagggacgggcgauggccu
ccguugcccucagccgaucgaaagggagucggguucagauccccgaaucc
ggaguggcggagaugggcgccgcgaggcguccagugcgguaacgcgaccg
aucccggagaagccggcgggagccccggggagaguucucuuuucuuugug
aagggcagggcgcccuggaauggguucgccccgagagaggggcccgugcc
uuggaaagcgucgcgguuccggcggcguccggugagcucucgcuggcccu
ugaaaauccgggggagaggguguaaaucucgcgccgggccguacccauau
ccgcagcaggucuccaaggugaacagccucuggcauguuggaacaaugua
gguaagggaagucggcaagccggauccguaacuucgggauaaggauuggc
ucuaagggcugguagcagccgacuuagaacuggugcggaccaggggaauc
cgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguuga
cgcgaugugauuucugcccagugcucugaaugucaaagugaagaaauuca
augaagcgcggguaaacggcgggaguaacuaugacucucuuaagguagcc
aaaugccucgucaucuaauuagugacgcgcaugaauggaugaacgagauu
cccacugucccuaccuacuauccagcgaaaccacagccaagggaacgggc
uuggcggaaucagcggggaaagaagacccuguugagcuugacucuagucu
ggcacggugaagagacacguuuuuucacugacccggugaggcgggggggc
gagccccgaggggcucucgcuucuggcgccaagcgccgggccccgucggu
ccgggccggcggcggccgggcgcgacccgcuccggggacagugccaggug
gggaguuugacuggggcgguacaccugucaaacgguaacgcagguguccu
aaggcgagcucagggaggacagaaaccucccguggagcagaagggcaaaa
gcucgcuugaucuugauuuucaguacgaauacagaccgugaaagcggggc
cucacgauccuucugagcuuuuggguuuuaagcaggaggugucagaaaag
uuaccacagggauaacuggcuuguggcggccaagcguucauagcgacguc
gcuuuuugauccuucgaugucggcucuuccuaucauugugaagcagaauu
caccaagcguuggauuguucacccacuaauagggaacgugagcuggguuu
agaccgucgugagacagguuaguuuuacccuacugaugauguguuguugc
caugguaauccugcucaguacgagaggaaccgcagguucagacauuuggu
guaugugcuuggcugaggagccaauggggcgaagcuaccaucugugggau
uaugacugaacgccucuaagucagaaucccgcccaggcggaacgauacgg
cagcgccgaaggagccucgguuggccucggauagccggucccccgcgggg
uccggugcggagagcccuucgucccgggaaauggggcgcggccggaaagg
gggccgcccucucgcccgucacgcaccgcacguucguggggaaccuggcg
cuaaaccauucguagacgaccugcuucugggucgggguuucguacguagc
agagcagcucccucgcugcgaucuauugaaagucagcccucgacacaagg
guuugu
.........................<<<<<<.....<......>......
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..>>>>>..<<<<<<<<<....<<<<<<<<.<<<....<<<<<<<<....
<<<<......>>>>.....((......<<<.....))>>>...>.>>>>>
>>>>>>>>>>>>>...>>>>>>>>>.......<<<<<<<........>>>
>>>>.....<<<<<..((((((>>>>>..>>>..................
................<<....>>...............<<<......>>
>..................................<<<<<<<<..<<<.<
<...<<<<<<<<.<<<.....<<<<<<<<<<....<<<<<<<.<<<<<.<
.....<<<<<.<<<..<<<<<<<<<<<<<.<...>>>>>>>>..>>>>>>
>>>>>>>>.>>>>>>>>>>...>>>.>>>>>>>>>>......>>>.>>>.
>>>>>...<<<<<<<.<<<<<<<<<<.<<<<...<<..<<<..<<<<<<<
......<<<<<<<<<<....<<<<<<<<<<<<<<..>>>>>>>>>>>>>>
........>>>>>>>>>>.......>>>>>>>..>>>.........>>>>
>>...>>>>>>>>>>.....<<.....[[>>......<<<<<..<<<<<<
<.>>>>>>>.<<<<<<.<<<<.<<<<<<<<<.<<<<<<<<<<<<<<.<<<
<....>>>>.>>>>>>>>>>>.>>>.>>>>>>.>>>...>>>>..>>>>.
>><<<<<.<<<<<<<..>>>>>>>>>>>>.....>>>>>......>>.>>
>>>...>>>>>...>>>>>>>>..<<<<........>>>><<<<<<....
<<<<<<<<<<<<<..<<<...<<<<........>>>>.....>>>...<<
....>>...<<<<<<<<<<<<..>>>>>>>>>>>>..<<<<<...<<<..
<<....((((.{{..>>..>>>....>>>>>.<<<<<<<<<.<<<<....
..>>>>>>>>>>>.>>....>>>>>>>>>>>>>..<<.<..<<<<<<<..
...<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>...
<<<..<<.<<........>>>>.>>>....>>>>>>>>>...<<......
.>>......>>>>>>...>..>.>>..<<<<<<....<.<<<....>>>.
><<.<<<<<<<..........<<<.<<<<<<<<<...<<<....<<<...
.<<<..<<<<<<.<.....>.>>>>>>>>>....>>>..>.>>...>>>>
>>>...<<<<<<<<<.<......>>>>>>>>>>....>>>>>>>>>>>>.
.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<
<<<<<<...<<<(((.......<<<<<.....<<..........<<<.<<
<<<<<<<<.......<<<<<.<<....<<.........>>....>>....
.....<<......>>...>>>>>...>>>>>>>>>>>>>..........)
)).>>...>>>>>..>>>...>>>>>>><<<<<<.<<<.......]]...
........}}.))))..............>>>>>>>>>....>>>>>>.<
.<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>
>>..>.....>>>>>><<.....<<.....<<<<<<.......>>>>>>.
<<<.....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((
<<<<<<...<<....<<<....>>>..........<<.<<<<<<<<<...
>>>>>>>>>>>......>>....>>>..<<<<<........>>>>>))<<
<<....<<<<<...<<<<<<<....>>>>>>>...<<<....>>>...<.
.<<<<<<<...<<<<<<<<<<<<.<<<<<<<<<<..[[[..>>>>>>...
.<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>>>..>>>
>>.....<<<<<<<.......>>>>>>>>>>>...>>>>>>>>>>>>...
......>>>>>>>..>..........>>.>>>.>>>>.>>>..>>.....
<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<.....<<<
<<<<.<<.........<.....<<<<<....<<..>>.....>>>>><<.
<<<<<<<<<<<....>>>>>..>>>>>>.>>............<<<<<<<
<<..<<<.........>>>..<<<<<<<....<<<<.....>>>>.....
.>>>>>>>...<<..<<<..<<<<<<....<<<.....<<<<....>>>>
.....>>>.>>>>..>>>>><<<<<<.......>>>>>>........<..
.........<<<<<.......>>>>>.....>.....>>....>>.>>>>
>>>..>..>>.>>>>>>>..>>>>>>....>>....<<<<<........>
>>>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<
<<<<<.<<<<<<<<<<..>>>>>>>>>>...<<<<<.....<<<<..<<.
<<<<<<<..>>>>>>>>>..............<<<<<.<<<<.<<<<<<<
<..>>>>>>>>..>>>>.>>>>>..>>>>..>>>>>....>>>>>>>>>.
.>>>>>...<<<.....>>>..<<<<<<...........>>>>>>..<<.
..<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>>....
>>>>>>>...<<<..<<<<.......>>>>..>>>.<<<....>>>.>>)
))].....<<<<<<<..<<<..)))))).>>>>>>>>>>.........>>
>>..>>>>>>.......<<.<.<.<<<<<<...<<.......>>...>>>
>>>...>>.>.>.......<<<<<.<<<<<<..<.<.<<<<<......>>
>>>...>.>.<<<.........>>>.....>>>>>..>...>>>.>>...
.<<<<<<<....>>>.>>>>....>>..>>>.>>>>>.....<<<<<<.<
..<<<..<.<<<<<.................>>>>>.><<<<....<<<<
....<<.<<<<<<<]]].>>>>>..>>.>>...>>>>...>>>><<<<<.
..<<<<<...........>>>>>...>>>>>.>>>...>.>>>>>>....
.<<<<<<<..<<..<<<<....<<<........<<<<<..<<<<..>>>>
.>>>>>.......>>>...<<<..<<<<....<<<<.<<<<<<.......
.>>>>>>>>>>...>>>>..>>>..............>>>>..>>>>>>>
>><<<<<.<.............>....<<.<<<<<<<.<<.....<<<<.
<..<<<<<......>>>>>..>>>>>....>>....>>>>.>>>.>>..>
>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB9f1d NAC guides a ribosomal multienzyme complex for nascent protein processing.
Resolution3.26 Å
Binding residue
(original residue number in PDB)
A2 K3 R4 T5 K6 K7 V8 G9 I10 G12 K13 Y14 G15 T16 R17 Y18 G19 A20 S21 R23 H34 F41 C42 K44 K46 R49 G58 S59 W69
Binding residue
(residue number reindexed from 1)
A1 K2 R3 T4 K5 K6 V7 G8 I9 G11 K12 Y13 G14 T15 R16 Y17 G18 A19 S20 R22 H33 F40 C41 K43 K45 R48 G57 S58 W68
External links
PDB RCSB:9f1d, PDBe:9f1d, PDBj:9f1d
PDBsum9f1d
PubMed39169182
UniProtG1SY53|RL37A_RABIT Large ribosomal subunit protein eL43 (Gene Name=RPL37A)

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