Structure of PDB 8p2k Chain Bi Binding Site BS01

Receptor Information

>8p2k Chain Bi (length=102) Species: 9986 (Oryctolagus cuniculus)

ALRYPMAVGLNKGHKVTKNVSKPRHSRRRGRLTKHTKFVRDMIREVCGFA
PYERRAMELLKVSKDKRALKFIKKRVGTHIRAKRKREELSSVLAAMRKAA
AK

Ligand information

>8p2k Chain B5 (length=3764)

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
ggcacggugaagagacaugagagguguagaauaagugggaggcccgggcc
gccggugaaauaccacuacucuuaucguuuuuucacugacccggugaggc
gggggggcgagccccgaggggcucucgcuucuggcgccaagcgccgggcc
ccgucgguccgggccggcggcggccgggcgcgacccgcuccggggacagu
gccagguggggaguuugacuggggcgguacaccugucaaacgguaacgca
gguguccuaaggcgagcucagggaggacagaaaccucccguggagcagaa
gggcaaaagcucgcuugaucuugauuuucaguacgaauacagaccgugaa
agcggggccucacgauccuucugagcuuuuggguuuuaagcaggaggugu
cagaaaaguuaccacagggauaacuggcuuguggcggccaagcguucaua
gcgacgucgcuuuuugauccuucgaugucggcucuuccuaucauugugaa
gcagaauucaccaagcguuggauuguucacccacuaauagggaacgugag
cuggguuuagaccgucgugagacagguuaguuuuacccuacugaugaugu
guuguugccaugguaauccugcucaguacgagaggaaccgcagguucaga
cauuugguguaugugcuuggcugaggagccaauggggcgaagcuaccauc
ugugggauuaugacugaacgccucuaagucagaaucccgcccaggcggaa
cgauacggcagcgccgaaggagccucgguuggccucggauagccgguccc
ccgcgggguccggugcggagagcccuucgucccgggaaauggggcgcggc
cggaaagggggccgcccucucgcccgucacgcaccgcacguucgugggga
accuggcgcuaaaccauucguagacgaccugcuucugggucgggguuucg
uacguagcagagcagcucccucgcugcgaucuauugaaagucagcccucg
acacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p2k NAC controls cotranslational N-terminal methionine excision in eukaryotes.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): R4 G14 H15 V17 R25 H26 S27 R28 R29 R30 G31 R32 L33 T34 K35 H36 R41 Y53 E59 V63 K65 K67 R68 K74 R76 G78 T79 H80 R82 K84 R85 K86
• Binding residue (residue number reindexed from 1): R3 G13 H14 V16 R24 H25 S26 R27 R28 R29 G30 R31 L32 T33 K34 H35 R40 Y52 E58 V62 K64 K66 R67 K73 R75 G77 T78 H79 R81 K83 R84 K85

Gene Ontology

Molecular Function

• 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:8p2k, PDBe:8p2k, PDBj:8p2k
• PDBsum: 8p2k
• PubMed: 37347872
• UniProt: G1TTQ5|RL36_RABIT Large ribosomal subunit protein eL36 (Gene Name=RPL36)