Structure of PDB 7a0r Chain D Binding Site BS01

Receptor Information

>7a0r Chain D (length=177) Species: 243230 (Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539)

QLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDK
AAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEK
LINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGM
DITIVTTAKTDEEARALLQSMGLPFRK

Ligand information

>7a0r Chain X (length=2730)

ggucaagauaguaaggguccacgguggaugcccuggcgcuggagccgaug
aaggacgcgauuaccugcgaaaagccccgacgagcuggagauacgcuuug
acucggggauguccgaauggggaaacccaccucguaagagguauccgcaa
ggaugggaacucagggaacugaaacaucucaguaccugaaggagaagaaa
gagaauucgauuccguuaguagcggcgagcgaacccggaucagcccaaac
cgaaacgcuugcguuucgggguuguaggaccaucaagccgaaguggcugg
aaagcuacaccucagaaggugagaguccuguaggcgaacgagccugagua
ggucguuguucgugaaacgaugacugaauccgcgcggaccaccgcgcaag
gcuaaauacucccagugaccgauagcgcauaguaccgugagggaaaggug
aaaagaaccccgggaggggagugaaagagaaccugaaaccguggacuuac
aagcagucauggcaccuuaugcguguuauggcgugccuauugaagcauga
gccggcgacuuagaccugacgugcgagcuuaaguugaaaaacggaggcgg
agcgaaagcgaguccgaauagggcggcauuaguacgucgggcuagacucg
aaaccaggugagcuaagcaugaccagguugaaacccccgugacagggggc
ggaggaccgaaccggugccugcugaaacagucucggaugaguuguguuua
ggagugaaaagcuaaccgaaccuggagauagcuaguucuccccgaaaugu
auugagguacagccucggauguugaccauguccuguagagcacucacaag
gcuaaaaccuuaugaaacuccgaaggggcacgcguuuaguccgggaguga
ggcugcgagagcuaacuuccguagccgagagggaaacaacccagaccauc
agcuaaggucccuaaaugaucgcucagugguuaaggaugugucgucgcau
agacagccaggagguuggcuuagaagcagccacccuucaaagagugcgua
auagcucacuggucgagugacgaugcgccgaaaaugaucggggcucaagu
gaucuaccgaagcuauggauucaacucgcgaagcgaguugucugguaggg
gagcguucaguccgcggagaagccauaccggaaggagugguggagccgac
ugaagugcggaugccggcaugaguaacgauaaaagaagugagaaucuucu
ucgccguaaggacaaggguuccuggggaagggucguccgcccagggaaag
ucgggaccuaaggugaggccgaacggcgcagccgauggacagcaggucaa
gauuccugcaccgaucauguggagugauggagggacgcauuacgcuaucc
aaugccaagcuauggcuaugcugguugguacgcucaagggcgaucggguc
agaaaaucuaccggucacaugccucagacguaucgggagcuuccucggaa
gcgaaguuggaaacgcgacggugccaagaaaagcuucuaaacguugaaac
augauugcccguaccgcaaaccgacacagguguccgagugucaaugcacu
aaggcgcgcgagagaacccucguuaaggaacuuugcaaucucaccccgua
acuucggaagaagggguccccacgcuucgcguggggcgcagugaauaggc
ccaggcgacuguuuaccaaaaucacagcacucugccaacacgaacagugg
acguauagggugugacgccugcccggugccggaaggucaaguggagcggu
gcaagcugcgaaaugaagccccggugaacggcggcuaagguagcgaaauu
ccuugucggguaaguuccgaccugcacgaaaggcguaacgaucugggcgc
ugucucaacgagggacucggugaaauugaauuggcuguaaagaugcggcc
uacccguagcaggacgaaaagaccccguggagcuuuacuauagucuggca
uugggauucggguuucuagaaacuuggauuucuaaccugaaaaaucacuu
ucggggaccgugcuuggcggguaguuugacuggggcggucgccucccaaa
auguaacggaggcgcccaaaggucaccucaagacgguuggaaaucgucug
uagagcgcaaagguagaagguggcuugacugcgagacugacacgucgagc
agggaggaaacucgggcuuagugaaccggugguaccguguggaagggcca
ucgaucaacggauaaaaguuaccccggggauaacaggcugaucucccccg
agaguccauaucggcggggagguuuggcaccucgaugucggcucgucgca
uccuggggcugaagaaggucccaaggguugggcuguucgcccauuaaagc
ggcacgcgagcuggguucagaacgucgugagacaguucggucucuauccg
cuacgggcgcaggagaauugaggggaguugcuccuaguacgagaggaccg
gagugaacggaccgcuggucucccugcugucguaccaacggcacaugcag
gguagcuauguccggaacggauaaccgcugaaagcaucuaagcgggaagc
cagccccaagaugaguucucccacuguuuaucagguaagacucccggaag
accaccggguuaagaggccaggcgugcacgcauagcaauguguucagcgg
acuggugcucaucagucgaggucuugacca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7a0r Ribosome-binding and anti-microbial studies of the mycinamicins, 16-membered macrolide antibiotics from Micromonospora griseorubida.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): V35 N37 S42 S43 T68 K71 F77 V85 K88 F122 G131 I132 K133 R150 G151 M152 D153 T155
• Binding residue (residue number reindexed from 1): V33 N35 S40 S41 T66 K69 F75 V83 K86 F120 G129 I130 K131 R148 G149 M150 D151 T153

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• 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:7a0r, PDBe:7a0r, PDBj:7a0r
• PDBsum: 7a0r
• PubMed: 34417608
• UniProt: Q9RXJ0|RL5_DEIRA Large ribosomal subunit protein uL5 (Gene Name=rplE)