Structure of PDB 8xt1 Chain LU Binding Site BS01

Receptor Information

>8xt1 Chain LU (length=160) Species: 9606 (Homo sapiens)

SYLPGYVPKTSLSSPPWPEVVLPDPVEETRHHAEVVKKVNEMIVTGQYGR
LFAVVHFASRQWKVTSEDLILIGNELDLACGERIRLEKVLLVGADNFTLL
GKPLLGKDLVRVEATVIEKTESWPRIIMRFRKRKNFKKKRIVTTPQTVLR
INSIEIAPCL

Ligand information

>8xt1 Chain L1 (length=1500)

gcuaaaccuagccccaaacccacuccaccuuacuaccagacaaccuuagc
caaaccauuuacccaaauaaaguauaggcgauagaaauugacuggcgcaa
uagauauaguaccgcaagggaaagaugaaaaauuauaaccaagcauaaua
uagcaaggacuaaccccuauaccuucugcauaaugaauuaacuagaaaua
acuuugcaaggagagccaaagcuaagacccccgaaaccagacgagcuacc
uaagaacagcuaaaagagcacacccgucuauguagcaaaauagugggaag
auuuauagguagaggcgacaaaccuaccgagccuggugauagcugguugu
ccaagauagaaucuuaguucaacuuuaaauuugcccacagaaccaaaucc
ccuuguaaauuuaacuguuaguccaaagaggaacagcucuuuggacacua
ggaaaaaaccuuguagagagaguaaaaaauuuaacacccauaguaggccu
aaaagcagccaccaauuaagaaagcguucaagcucaacacccacuaccua
aaaaaucccaaacauauaacugaacuccucacacccaauuggaccaaucu
aucacccuauagaagaacuaauguuaguauaaguaacaugaaaacauucu
ccuccgcauaagccugcgucagaucacacugacaauuaacagcccaauau
cuacaaucaaccaacaagucauuauuacccucacugucaacccaacacag
gcaugcucauaaggaaagguuaaaaaaaguaaaaggaacucggcaaaucu
uaccccgccuguuuaccaaaaacaucaccucuagcaucaccaguauuaga
ggcaccgccugcccagugacacauguuuaacggccgcgguacccuaaccg
ugcaaagguagcauaaucacuuguuccuuaaauagggaccuguaugaaug
gcuccacgaggguucagcugucucuuacuuuuaaccagugaaauugaccu
gcccgugaagaggcgggcauaacacagcaagacgagaagacccuauggag
cuuuaauuuauuaaugcaaacaguaaccugcauuaaaaauuucgguuggg
gcgaccucggagcagaacccaaccuccgagcaguacaugcuaagacuuca
ccagucaaagcgaaccucaauugauccaauaacuugaccaacggaacaag
uuacccuagggauaacagcgcaauccuauucuagaguccauaucaacaau
aggguuuacgaccucgauguuggaucaggacaucccgauggugcagccgc
uauuaaagguucguuuguucaacgauuaaaguccuacgugaucugaguuc
agaccggaguaauccaggucgguuucuaucuacuuuaaauuccucccugu
acgaaaggacaagagaaauaaggccuacuucacaaagcgccuucccccgu
aaaugauaucaucucaacuuagauacccacacccacccaagaacaggguu

<<<.......<<<<....................................
.<......>.........<.....<<.....>>....>.....>>.>>..
...........<<....>>......................>>>......
.....<<<.......>>>...<.<........>.>.<<<<<<........
.<<<.<<..<<....>>...>>.>>>...<<.<...<<<<.<.....<<<
<<.<<<..<<<.....>>>...<<<..<<<<........>>>>.>>>...
.>>>.>>>>>...<<.......>>......>.>>>>......>.>>..<<
<<<<....<<<<....>>>><<<.<<<<<<<<<<.....<<......>>.
....>>>>>>>>>>..>>>.<<<<<<<<<<......>>>>>>>>>>...<
<<......>>>....<<<.<<<...<..............<....<<<..
.......>>>....>.......<<<......>>>................
....................>...>>>>>>........>>>>>>...<<<
<<......>>>>>.........>>>>>><......<<..<<<....>>><
<<<..<<<<........<<<<<......>>>>>......<<<...<<<<.
......................>>>>.......>>>.....<<......>
>.>>>>.....>>>>..<<<<...<<<<<<<<.<<.........<.....
.<<<<<<..<<<.........>>>...<<<<<<.............>>>>
>>....<<<.<<<..<<<<<....>>>..>>>>><<<<<<......>>>>
>>........<...........<<<<<<.....>>>>>>.....>....>
>>....>>.>>>>.....>..>>.>>>>>>>>>>>>.>>.....>.....
<<<<<........>>>>>.......<<..<<<.<<......<<<<.<<<<
<<..<<<<<.<<<<<<<<..........>>>>>>>>>>>>>..<<<<...
..>>>><<<<<<...........>>>>>>..<<.....<<<..<<<<...
..>>>>..>>>....>>.........<<<....>>>............>>
>>..>>>>>>.......<<<..<.<<<<<<...<<.......>>...>>>
>>>...>.>>.>.......<<<<<.<<<<<<..<<.<<<<<<......>>
>>>>...>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>...
.<<<<<<<....>>>.>>>>....>>..>>>.>>....<<<.<<<.....
............>>>.>>><<<<<...<<<....>>>.>>>>>......<
<<................>>>.............<<<<.......>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8xt1 Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): W61 P62 A102 S103 R104 N118 R169 R173 F174 R175 K176 R177 K178 F180 K182 K183 R184 T188
• Binding residue (residue number reindexed from 1): W17 P18 A58 S59 R60 N74 R125 R129 F130 R131 K132 R133 K134 F136 K138 K139 R140 T144

Gene Ontology

Molecular Function

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

Biological Process

• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8xt1, PDBe:8xt1, PDBj:8xt1
• PDBsum: 8xt1
• PubMed: 38942792
• UniProt: Q7Z2W9|RM21_HUMAN Large ribosomal subunit protein bL21m (Gene Name=MRPL21)