Structure of PDB 8fl2 Chain NF Binding Site BS01

Receptor Information

>8fl2 Chain NF (length=233) Species: 9606 (Homo sapiens)

PQNEYIELHRKRYGYRLDYHEKKRKKESREAHERSKKAKKMIGLKAKLYH
KQRHAEKIQMKKTIKMHEKRNTKTPQGAVPAYLLDRAGKWEVPLPKVRAQ
GETEVLKVIRTGKRKKKAWKRMVTKVCFVGDGFTRKPPKYERFIRPMGLR
FKKAHVTHPELKATFCLPILGVKKNPSSPLYTTLGVITKGTVIEVNVSEL
GLVTQGGKVIWGKYAQVTNNPENDGCINAVLLV

Ligand information

>8fl2 Chain L3 (length=3495)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccggggcgcgggacauguggc
guacggaagacccgcuccccggcgccgcgggggcccaaguccuucugauc
gaggcccagcccguggacggugugaggccgguagcggcccccggcgcgcc
gggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcg
ggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaa
caaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaaga
gggcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgccc
ggaggauucaacccggcggcggccggccgugucggcggcccggcggaucu
gggaccgucccccgaccggcgaccggccgccgccgggcgcauuuccaccg
cggcggugcgccgcgaccggcuccgggacggcugggaaggcccggcgggg
aagguggcucgggcccgaguguuacagcccccccggcagcagcacucgcc
gaaucccggggccgagggagucgccgcgcucuccccccggggggccgggc
caccccucccacggcgcgcgccgucgggcccggggggccacgcgcgcguc
ccccgaagagggggacggcggagcgagcgcacggggucggcggcgacguc
ggcuacccacccgacccgucuugaaacacggaccaaggagucuaacacgu
gcgcgagucgggggcucgcacgaaagccgccguggcgcaaugaaggugaa
ggccgcggccgaggugggaucccgaggcccgccgagggcgcaccaccggc
ccgucucgcccgccgcgccggggagguggagcacgagcgcacguguuagg
acccgaaagauggugaacuaugccugggcagggcgaagccagaggaaacu
cugguggagguccguagcgguccugacgugcaaaucggucguccgaccug
gguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccg
aaguuucccucaggauagcuggcgcucuccgcaguuuuauccgguaaagc
gaaugauuagaggucuuggggccggaucucaaccuauucucggguaagaa
gcccggcucgcuggcguggagccgggcguggaaugcgagugccuaguggg
ccacuuuugguaagcagaacuggcgcugcgggaugaaccgaacgccgggu
uaaggcgcccgaugccgacgcucaucagaccccagaaaagguguugguug
auauagacagcaggacgguggccauggaagucggaauccgcuaaggagug
uguaacaacucaccugccgaaucaacuagcccugaaaauggauggcgcug
gagcgucgggcccauacccggccgucgccggcagugacgcuacgccgcga
cgaguaggagggccgcugcggugagccuugaagccuagggcgcgggcccg
gguggagccgccgcaggugcagaucuuggugguaguagcaaauauucaaa
cgagaacuuugaaggccgaaguggagaaggguuccaugugaacagcaguu
gaacaugggucagucgguccugagagaugggcgagcgccguuccgaaggg
acgggcgauggccuccggcccucgaucgaaagggagucggguucagaucc
ccgaauccggaguggcggagaugggcgccgcgaggcguccagugcgguaa
cgcgaccgaucccggagaagccggcgggagccccggggagaguucucuuu
ucuuugugaagggcagggcgcccuggaauggguucgccccgagagagggg
cccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucucg
cuggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccgu
acccauauccgcagcaggucuccaaggugaacagccucuggcauguugga
acaauguagguaagggaagucggcaagccggauccguaacuucgggauaa
ggauuggcucuaagggcugggucggucgggcuggggcgcgaagcgggguc
ccguggaucgccccagccggccggcgccuagcagccgacuuagaacuggu
gcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgcgaaggc
ccgggguguugacgcgaugugauuucugcccagugcucugaaugucaaag
ugaagaaauucaaugaagcgcggguaaacggcgggaguaacuaugacucu
cuuaagguagccaaaugccucgucaugugacgcgcaugaauggaugaacg
agauucccacugucccuaccuacuauccagcgaaaccacagccaagggaa
cgggcuuggcggaaucagcggggaaagaagacccuguugagcuugacucu
agucuggcacggugaagagacaugagagguguagaauaagugggaggcgg
ccgccggugaaauaccacuacucugaucguuuuuucacugacccggugag
gcggggggcuucuggcgccaagcgcccggccgcgcgccggccgggcgcga
cccgcuccggggacagugccagguggggaguuugguacaccugucaaacg
guaacgcagguguccuaaggcgagcucagggaggacagaaaccucccgug
gagcagaagggcaaaagcucgcuugaucuugauuuuguacgaauacagac
cgugaaagcggggccucacccuucugaccuuuuggguuuuaagcaggagg
aaguuaccacagggauaacuggcuuguggcggccaagcgagcgacgucgc
uuuuugauccuucgaugucggcucuuccuaucauugugaagcagaauuca
ccaagcguuggauuguucacccacuaauagggaacgugagcuggguuuag
accgucgugagacagguuaguuuuacccuacugaugauguguuguugcca
ugguaauccugcucaguacgagaggaaccgcagguucagacauuuggugu
augugcuuggcugaggagccaauggggcgaagcuaccaucugugggauua
ugacugaacgccucuaagucagaaucccgcccaggcggaacgauagcgcc
gcggagccucgguuggccucggauagccgguccccgggguccggugcgga
gugcccuucguccugggaaacggggcgcggccggagaggcggccgccccc
ucgcccgucacgcaccgcacguucguggggaaccuggcgcuaaaccauuc
guagacgaccugcuucugggucgggguuucguacguagcagagcagcucc
cucgcugcgaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fl2 Principles of human pre-60 S biogenesis.
• Resolution: 2.67 Å
• Binding residue (original residue number in PDB): P2 Q3 E5 Y6 I7 E8 K23 R25 K26 S29 R30 A32 H33 S36 A39 K40 M42 I43 G44 L45 K46 K48 L49 H51 R54 H55 K58 K63 K123 K134 I136 T138 G139 K140 R141 K144 W146 R162 K163 P165 K166 Y167 E168 R169 F170 I171 P173 M174 G175 H182 K189 T191 L207 T210 Q232 G233 N246 D251 N255
• Binding residue (residue number reindexed from 1): P1 Q2 E4 Y5 I6 E7 K22 R24 K25 S28 R29 A31 H32 S35 A38 K39 M41 I42 G43 L44 K45 K47 L48 H50 R53 H54 K57 K62 K96 K107 I109 T111 G112 K113 R114 K117 W119 R135 K136 P138 K139 Y140 E141 R142 F143 I144 P146 M147 G148 H155 K162 T164 L180 T183 Q205 G206 N219 D224 N228

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0000460 maturation of 5.8S rRNA
• GO:0000470 maturation of LSU-rRNA
• GO:0006364 rRNA processing
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fl2, PDBe:8fl2, PDBj:8fl2
• PDBsum: 8fl2
• PubMed: 37410842
• UniProt: O95478|NSA2_HUMAN Ribosome biogenesis protein NSA2 homolog (Gene Name=NSA2)