Structure of PDB 4xej Chain BL06 Binding Site BS01

Receptor Information
>4xej Chain BL06 (length=159) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRH
KSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGRALELTVGFSH
PVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKG
IYYAGEPVR
Ligand information
>4xej Chain B23S (length=2876) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uuuuugcgcggggggaaccuggggaacugaaacaucucaguacccagagg
agaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggacca
gccuaaaccguccggcuuguccgggcggggucguggggcccucggacacc
gaauccccagccuagccgaagcuguugggaagcagcgccagagaggguga
aagccccguaggcgaaagguggggggauaggugaggguacccgaguaccc
cgugguucguggagccaugggggaaucugggcggaccaccgccuaaggcu
aaguacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaa
aagaaccccgggaggggagugaaauagagccugaaaccgugggcuuacaa
gcagucacggccccgcaagggguuguggcgugccuauugaagcaugagcc
ggcgacucacggucgugggcgagcuuaagccguugaggcggaggcguagg
gaaaccgaguccgaacagggcgucuaguccgcggccguggacccgaaacc
gggcgagcuagcccuggccagggugaagcuggggugagacccaguggagg
cccgaaccggugggggaugcaaaccccucggaugagcuggggcuaggagu
gaaaagcuaaccgagcccggagauagcugguucuccccgaaaugacuuua
gggucagccucaggcgcugacuggggccuguagagcacugauagggcuag
ggggcccaccagccuaccaaacccugucaaacuccgaagggucccaggug
gagccugggagugagggcgcgagcgauaacguccgcguccgagcgcggga
acaaccgagaccgccagcuaaggcccccaagucugggcuaagugguaaag
gauguggcgccgcgaagacagccagggguuggcuuagaagcagccauccu
uuaaagagugcguaauagcucacuggucgaguggcgccgcgccgaaaaug
aucggggcuuaagcccagcgccgaagcugcgggucugggggaugacccca
ggcgguaggggagcguucccgaugccgaugaaggccgacccgcgagggcg
gcuggagguaagggaagugcgaaugccggcaugaguaacgauaaagaggg
ugagaaucccucucgccguaagcccaaggguuccuacgcaauggucguca
gcguaggguuaggcgggaccuaaggugaagccgaaaggcguagccgaagg
gcagccgguuaauauuccggcccuucccgcaggugcgauggggggacgcu
cuaggcuagggggaccggagccauggacgagcccggccagaagcgcaggg
ugggagguaggcaaauccgccucccaaaagcucugcgugguggggaagcc
cguacgggugacaaccccccgaagccagggagccaagaaaagccucuaag
cacaaccugcgggaacccguaccgcaaaccgacacaggugggcgggugca
agagcacucaggcgcgcgggagaacccucgccaaggaacucugcaaguug
gccccguaacuucgggagaaggggugcucccuggggugaugagcuccggg
gagccgcagugaacaggcucuggcgacuguuuaccaaaaacacagcucuc
ugcgaacucguaagaggagguauagggagcgacgcuugcccggugccgga
aggucaaggggaggggugcaagccccgaaccgaagccccggugaacggcg
gccguaacuauaacgguccuaagguagcgaaauuccuugucggguaaguu
ccgaccugcacgaaaagcguaacgaccggagcgcugucucggcgagggac
ccggugaaauugaacuggccgugaagaugcggccuacccguggcaggacg
aaaagaccccguggagcuuuacugcagccugguguuggcucuggucgcgc
cugcguaggauaggugggagccugugaacccccgccuccggguggggggg
aggcgccggugaaauaccacccuggcgcggcuggggccuaacccucggau
ggggggacagcgcuuggcgggcaguuugacuggggcggucgccuccuaaa
agguaacggaggcgcccaaagguccccucaggcgggacggaaauccgccg
gagagcgcaaggguagaagggggccugacugcgaggccugcaagccgagc
aggggcgaaagccgggccuagugaaccgguggucccguguggaagggcca
ucgaucaacggauaaaaguuaccccggggauaacaggcugaucucccccg
agcguccacagcggcggggagguuuggcaccucgaugucggcucgucgca
uccuggggcugaagaaggucccaaggguugggcuguucgcccauuaaagc
ggcacgcgagcuggguucagaacgucgugagacaguucggucucuauccg
ccacgggcgcaggaggcuugaggggggcucuuccuaguacgagaggaccg
gaagggacgcaccucugguuucccagcugucccuccaggggcauaagcug
gguagccaugugcggaagggauaaccgcugaaagcaucuaagcgggaagc
ccgccccaagaugaggccucccacggcgucaagccgguaaggacccggga
agacuacccgguggaugggccggggguguaagcgccgcgaggcguugagc
cgaccggucccaaucguccgaggucu
<<<......<<<<<<<<<<<.....[[..[[<<<<<<[[<<......<<<
<<<.((..((.>>>.....<<<<<<<..<<<))..)).>>>.....>>>>
>>>...>>>....<<<....>>><<<<<<<<....>>>>>>>>.<<<<<<
.....>>>>>>.>>....<<<<<.....<......>......>>>>>...
........<<....>>...<<<<<.....<<.....>>....>>>>>...
(((....<<<<<<<<.....>>>>>>>>......<<<<<<<<<....<<<
...<<<<<.<<<<.<<<...<<<<<......>>>>>((......<<<...
..))>>>...>>>...>>>>..>>>>>..>>>>>>>>>.>>>.....<<<
<<<<<<.......>>>>>>>>>......<<<<<..<<<<>>>>>..))).
.....]].>>>>>>.]]...............<<....>>....]]....
.....<<<<....>>>>..................>>>>>>>>>>>....
...<<<<<<<<<<<....>>>>>>>>>>>...<............>.<<<
<<<....<<<<<<<<<<<<<..<<<...<<<.....>>>...>>>...<<
....>>..<<<<.....>>>>.....>>>>>>>>>>>>>..<<.<...<<
<<<<.....<<<<<<<<<..<<<....<<<<<<......>>>>>>.....
>>>...<<<..<<<<........>>>>.>>>....>>>>>>>>>...<<<
.....>>>......>>>>>>......>.>>..<<<<<<....<<<<<...
.>>>>><<<<<<<<<.....<<<<<<<<<...<<<...<<<<<<<<.<.<
<<<<<......>>>>.>>>..>>>>>>>>..>>.>...>>>>>>>>>...
..>>>>>>>.>>..<<<<<<<.<<......>>.>>>>>>>.....<<<..
....>>>...<<<<.<<<...<<<(((.....<<<<<<...........<
<..<<<<<<<<<........<<<<<.<<..<<<<.......>>>>..>>.
.........<<......>>...>>>>>....>>>>>>>>>.>>.......
...)))......>>>>>>.>>>...>>>>>>><<<<<<<<.....>>>>>
>>>....>>>>>><.<<<<<...<<<......<<<<<.<<<....>>>>>
>>>...>>>..>>>>>..>.....>>>>>><......<<.....<<<<<<
.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>
.>>>>>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>
...<<<<<........>>>>>))<<<<<<<<<<<<<...<<<<....<<<
<<.<<<..<<<<<.<<<<.<<..((((...>>>>>><<<...<<<<<<<<
<<<<<<<<.<<.....>>>>>>>>>....>>>>>>>>>..>>><...<<<
<....>>>>.....>>>>>>...>>>..>>>>>.........>>>>...>
>...>>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<<.
...>>>>>..>>>>..<<<<....<<<<<<<<.<<.........<.....
<<<<<...............>>>>><<<<<<<<<<<<.....>>>>>>>>
>>>>............<<<<<<<<<..<<<.........>>>..<<<<<<
<.....<<<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<.
.<<<...<<...<<<<<....>>>>>...>>...>>>>>>>>..>>>>><
<<<<<.......>>>>>>........<...........<<<<<<.....>
>>>>>.....>....>>>>>..>>.>>>>>>>..>..>>.>>>>>>>>.>
>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.(((..
.......<<<<.[[<<<<..<<<<..<<<.<<<<<.<<<<<<<<<<<<<<
<.<.........<<<<<..<<<......<<<<<<<<....>>>>>>>>..
.>>>............>>>>>>.>>>>>>>>>>>>>>>...<<<<<....
>>>>>....>>>>>.>>>...>>>>..<<<<.....>>>><<<<<<....
.......>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.
....<<...(((>>....>>>>>>>...<<<<..<<<......>>>..>>
>>.<<<....>>>.>>))).......<<<<<<..((..>>>>..)).>>>
>>>.............>>>>..]]>>>>.......<<<<...<<<<<<..
.<<.......>>...>>>>>>....>>>.>.......<.<<<..<<<<<.
.<<<<<<<<<......>>>>>>>..>>.<<<<<.....>>>>>.....>>
>>>......>>>..>....<<<<<<<....>>>.>>>>........)))>
>>>>>>>....<<<<<<<...<<<<..<<<<<<<...............>
>>>>>>.<<<<<...<<<<...<<<<<<<<<<<))))>>>>>>...>>>>
>...>>>>.>>>>>...<<<....<<<<<...........>>>>>....>
>>.>>>>.......>>>>>>>...<<<.....>>>.....<<<<<<<<<.
......>>>>>....<<<<<<<<.<<<....<<<<<....>>>>>...>>
>..>>>>>.>>>...>>>>....>>>
Receptor-Ligand Complex Structure
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PDB4xej Initiation of translation in bacteria by a structured eukaryotic IRES RNA.
Resolution3.8 Å
Binding residue
(original residue number in PDB)
R59 K62 S63 G66 L67 T70 F109 S110 K138 Q139 G142 Q143 A146 R152 K153 Y157 H158 K160
Binding residue
(residue number reindexed from 1)
R48 K51 S52 G55 L56 T59 F98 S99 K127 Q128 G131 Q132 A135 R141 K142 Y146 H147 K149
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:4xej, PDBe:4xej, PDBj:4xej
PDBsum4xej
PubMed25652826
UniProtQ72I19|RL6_THET2 Large ribosomal subunit protein uL6 (Gene Name=rplF)

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