Structure of PDB 1nwy Chain T Binding Site BS01

Receptor Information

>1nwy Chain T (length=223) Species: 1299 (Deinococcus radiodurans)

MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTG
LFDITVEGGETFPALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHT
TGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAG
DIKLPEGCTLAADPELTVVSVLPPRLTAEELEAEVQAAQVAGLVAAGELS
EEAAEAVLEGDASLEEVKAEASE

Ligand information

>1nwy Chain 0 (length=2766)

ggucaagauaguaaggguccacgguggaugcccuggcgcuggagccgaug
aaggacgcgauuaccugcgaaaagccccgacgagcuggagauacgcuuug
acucggggauguccgaauggggaaacccaccucguaagagguauccgcaa
ggaugggaacucagggaacugaaacaucucaguaccugaaggagaagaaa
gagaauucgauuccguuaguagcggcgagcgaacccggaucagcccaaau
ucaaccccucaagccgaaguggcuggaaagcuacaccucagaaggugaga
guccuguaggcgaacgagcgguugacuguaaggucguuguucgugaaacg
augacugaauccgcgcggaccaccgcgcaaggcuaaauacucccagugac
cgauagcgcauaguaccgugagggaaaggugaaaagaaccccgggagggg
agugaaagagaaccugaaaccguggacuuacaagcagucauggcaccuua
ugcguguuauggcgugccuauugaagcaugagccggcgacuuagaccuga
cgugcgagcuuaaguugaaaaacggaggcggagcgaaagcgaguccgaau
agggcggcauuaguacgucgggcuagacucgaaaccaggugagcuaagca
ugaccagguugaaacccccgugacagggggcggaggaccgaaccggugcc
ugcugaaacagucucggaugaguuguguuuaggagugaaaagcuaaccga
accuggagauagcuaguucuccccgaaauguauugagguacagccucgga
uguugaccauguccuguagagcacucacaaggcuaaaaccuuaugaaacu
ccgaaggggcacgcguuuaguccgggagugaggcugcgagagcuaacuuc
cguagccgagagggaaacaacccagaccaucagcuaaggucccuaaauga
ucgcucagugguuaaggaugugucgucgcauagacagccaggagguuggc
uuagaagcagccacccuucaaagagugcguaauagcucacuggucgagug
acgaugcgccgaaaaugaucggggcucaagugaucuaccgaagcuaugga
uucaacucgcgaagcgaguugucugguaggggagcguucaguccgcggag
aagccauaccggaaggagugguggagccgacugaagugcggaugccggca
ugaguaacgauaaaagaagugagaaucuucuucgccguaaggacaagggu
uccuggggaagggucguccgcccagggaaagucgggaccuaaggugaggc
cgaacggcgcagccgauggacagcaggucaagauuccugcaccgaucaug
uggagugauggagggacgcauuacgcuauccaaugccaagcuauggcuau
gcugguugguacgcucaagggcgaucgggucagaaaaucuaccggucaca
ugccucagacguaucgggagcuuccucggaagcgaaguuggaaacgcgac
ggugccaagaaaagcuucuaaacguugaaacaugauugcccguaccgcaa
accgacacagguguccgagugucaaugcacuaaggcgcgcgagagaaccc
ucguuaaggaacuuugcaaucucaccccguaacuucggaagaaggggucc
ccacgcuucgcguggggcgcagugaauaggcccaggcgacuguuuaccaa
aaucacagcacucugccaacacgaacaguggacguauagggugugacgcc
ugcccggugccggaaggucaaguggagcggugcaagcugcgaaaugaagc
cccggugaacggcggccguaacuauaacgguccuaagguagcgaaauucc
uugucggguaaguuccgaccugcacgaaaggcguaacgaucugggcgcug
ucucaacgagggacucggugaaauugaauuggcuguaaagaugcggccua
cccguagcaggacgaaaagaccccguggagcuuuacuauagucuggcauu
gggauucggguuucucugcguaggugggagaaacuggccggucgguggcc
acccugagaaacuuggauuucuaaccugaaaaaucacuuucggggaccgu
gcuuggcggguaguuugacuggggcggucgccucccaaaauguaacggag
gcgcccaaaggucaccucaagacgguuggaaaucgucuguagagcgcaaa
gguagaagguggcuugacugcgagacugacacgucgagcagggaggaaac
ucgggcuuagugaaccggugguaccguguggaagggccaucgaucaacgg
auaaaaguuaccccggggauaacaggcugaucucccccgagaguccauau
cggcggggagguuuggcaccucgaugucggcucgucgcauccuggggcug
aagaaggucccaaggguugggcuguucgcccauuaaagcggcacgcgagc
uggguucagaacgucgugagacaguucggucucuauccgcuacgggcgca
ggagaauugaggggaguugcuccuaguacgagaggaccggagugaacgga
ccgcuggucucccugcugucguaccaacggcacaugcaggguagcuaugu
ccggaacggauaaccgcugaaagcaucuaagcgggaagccagccccaaga
ugaguucucccacuguucagguaagacucccggaagaccaccggguuaag
aggccaggcgugcacgcauagcaauguguucagcggacuggugcucauca
gucgaggucuugacca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1nwy Structural basis for the antibiotic activity of ketolides and azalides.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): Q189 G192
• Binding residue (residue number reindexed from 1): Q189 G192

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:1nwy, PDBe:1nwy, PDBj:1nwy
• PDBsum: 1nwy
• PubMed: 12623020
• UniProt: Q9RX88|RL25_DEIRA Large ribosomal subunit protein bL25 (Gene Name=rplY)