Structure of PDB 7zjx Chain LH Binding Site BS01

Receptor Information

>7zjx Chain LH (length=243) Species: 9986 (Oryctolagus cuniculus)

PKKGKPHCSRNPVLVRGIGRYSRSAMYSRKALYKRKYAAPKSRIERKKKR
EKVLATVTKPVGGDKNGGTRVVKLRKMPRYYPTEDVPRKLLSHGKKPFSQ
HVRKLRASITPGTILIILTGRHRGKRVVFLKQLSSGLLLVTGPLSLNRVP
LRRTHQKFVIATSTKIDISGVKIPKHLTDAYFKKKKLRKPEKEKYEITEQ
RKVDQKAVDSQILPKIKAVPQLQGYLRSVFALTNGVYPHKLVF

Ligand information

>7zjx Chain L5 (length=3732)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcgguggggcgcgggaaau
guggcguacggaagacccacuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcgugguccggccgugccggcg
gucucggcggaucuuucccgcuccggggucggcgggggaccgccccccgg
ccggcgaccggccgccgccgggcgcauuuccaccgcggcggugcgccgcg
accggcuccgggacggcugggaaggccccggcggggaagguggcccgggg
ggacgccucgccggcgggcgcgaccccuccccggguguuacagccccgcc
ccggcagcagcagcucgccgaaucccggggccgagggagcgagaccugug
ucgccgcgcucuccccccucgggggggccgggccgccccucccacggcgc
gaccgcucggggcggacuguccccagugcgccccgggcgugucacgccgu
cgggcucgggggaggccacggcgcgucgcgcgccggcgcgcgcgcgcgag
cgagcgcacggggucggcggcgaugucggcuacccacccgacccgucuug
aaacacggaccaaggagucuaacacgugcgcgagucgggggcucgcacga
aagccgccguggcgcaaugaaggugaaggccggcggcggcgccgucgucg
gccgaggugggaucccgaggcccuuccaguccgccgagggcgcaccaccg
gcccgucucgcccgccgcgccggggagguggagcacgagcgcacguguua
ggacccgaaagauggugaacuaugccugggcagggcgaagccagaggaaa
cucugguggagguccguagcgguccugacgugcaaaucggucguccgacc
uggguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccuc
cgaaguuucccucaggauagcuggcgcucucgcaaccccgcaguuuuauc
cgguaaagcgaaugauuagaggucuuggggccgaaacgaucucaaccuau
ucucaaacuuuaaauggguaagaagcccggcucgcuggcguggagccggg
cguggaaugcgagugccuagugggccacuuuugguaagcagaacuggcgc
ugcgggaugaaccgaacgccggguuaaggcgcccgaugccgacgcucauc
agaccccagaaaagguguugguugauauagacagcaggacgguggccaug
gaagucggaauccgcuaaggaguguguaacaacucaccugccgaaucaac
uagcccugaaaauggauggcgcuggagcgucgggcccauacccggccguc
gcuggcagucggcagagcgagaaagagaguggagccgcggacgcuacgcc
gcgacgaguaggagggccgcugcggugagccuugaagccuagggcgcggg
cccggguggagccgccgcaggugcagaucuuggugguaguagcaaauauu
caaacgagaacuuugaaggccgaaguggagaaggguuccaugugaacagc
aguugaacaugggucagucgguccugagagaugggcgagcgccguuccga
agggacgggcgauggccuccguugcccucagccgaucgaaagggagucgg
guucagauccccgaauccggaguggcggagaugggcgccgcgaggcgucc
agugcgguaacgcgaccgaucccggagaagccggcgggagccccggggag
aguucucuuuucuuugugaagggcagggcgcccuggaauggguucgcccc
gagagaggggcccgugccuuggaaagcgucgcgguuccggcggcguccgg
ugagcucucgcuggcccuugaaaauccgggggagaggguguaaaucucgc
gccgggccguacccauauccgcagcaggucuccaaggugaacagccucug
gcauguuggaacaauguagguaagggaagucggcaagccggauccguaac
uucgggauaaggauuggcucuaagggcugguagcagccgacuuagaacug
gugcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgcgaag
gcccgcggcggguguugacgcgaugugauuucugcccagugcucugaaug
ucaaagugaagaaauucaaugaagcgcggguaaacggcgggaguaacuau
gacucucuuaagguagccaaaugccucgucaucuaauuagugacgcgcau
gaauggaugaacgagauucccacugucccuaccuacuauccagcgaaacc
acagccaagggaacgggcuuggcggaaucagcggggaaagaagacccugu
ugagcuugacucuagucuggcacggugaagagacaugagagguguagaau
aagugggaggcccgggccgccggugaaauaccacuacucuuaucguuuuu
ucacugacccggugaggcgggggggcgagccccgaggggcucucgcuucu
ggcgccaagcgccgggccccgucgguccgggccggcggcggccgggcgcg
acccgcuccggggacagugccagguggggaguuugacuggggcgguacac
cugucaaacgguaacgcagguguccuaaggcgagcucagggaggacagaa
accucccguggagcagaagggcaaaagcucgcuugaucuugauuuucagu
acgaauacagaccgugaaagcggggccucacgauccuucugagcuuuugg
guuuuaagcaggaggugucagaaaaguuaccacagggauaacuggcuugu
ggcggccaagcguucauagcgacgucgcuuuuugauccuucgaugucggc
ucuuccuaucauugugaagcagaauucaccaagcguuggauuguucaccc
acuaauagggaacgugagcuggguuuagaccgucgugagacagguuaguu
uuacccuacugaugauguguuguugccaugguaauccugcucaguacgag
aggaaccgcagguucagacauuugguguaugugcuuggcugaggagccaa
uggggcgaagcuaccaucugugggauuaugacugaacgccucuaagucag
aaucccgcccaggcggaacgauacggcagcgccgaaggagccucgguugg
ccucggauagccggucccccgcgggguccggugcggagagcccuucgucc
cgggaaauggggcgcggccggaaagggggccgcccucucgcccgucacgc
accgcacguucguggggaaccuggcgcuaaaccauucguagacgaccugc
uucugggucgggguuucguacguagcagagcagcucccucgcugcgaucu
auugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7zjx Structure of the mammalian ribosome as it decodes the selenocysteine UGA codon.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): K40 G42 H45 C46 S47 R48 V53 R54 S60 R61 S62 M64 Y65 S66 R67 K68 A69 Y71 K72 R73 Y75 L92 A93 T94 P98 G100 K103 N104 R108 K111 R113 K114 P116 R117 Y118 P125 R126 K127 L128 L129 S130 H131 K133 K134 P135 F136 S137 H139 K142 T157 G158 R159 H160 R161 L182 L184 R186 P188 R190 R191 H193 K195 F196 F220 K222 R226 Y243 I245 K265 Q269 Q271 R275 V277 T281 N282
• Binding residue (residue number reindexed from 1): K2 G4 H7 C8 S9 R10 V15 R16 S22 R23 S24 M26 Y27 S28 R29 K30 A31 Y33 K34 R35 Y37 L54 A55 T56 P60 G62 K65 N66 R70 K73 R75 K76 P78 R79 Y80 P87 R88 K89 L90 L91 S92 H93 K95 K96 P97 F98 S99 H101 K104 T119 G120 R121 H122 R123 L144 L146 R148 P150 R152 R153 H155 K157 F158 F182 K184 R188 Y195 I197 K217 Q221 Q223 R227 V229 T233 N234

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005791 rough endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7zjx, PDBe:7zjx, PDBj:7zjx
• PDBsum: 7zjx
• PubMed: 35709277
• UniProt: G1SKF7|RL6_RABIT Large ribosomal subunit protein eL6 (Gene Name=RPL6)