Structure of PDB 7yla Chain R Binding Site BS01

Receptor Information
>7yla Chain R (length=142) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKTFTAKPETVKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDT
GDYIIVLNADKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERV
IEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVLDI
Ligand information
>7yla Chain I (length=2876) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcugcgug
ugacugcguaccuuuuguauaaugggucagcgacuuauauucuguagcaa
gguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggcguu
aaguugcaggguauagacccgaaacccggugaucuagccaugggcagguu
gaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaaaaa
uuagcggaugacuuguggcugggggugaaaggccaaucaaaccgggagau
agcugguucuccccgaaagcuauuuagguagcgccucgugaauucaucuc
cggggguagagcacuguuucggcaagggggucacuuaccaacccgaugca
aacugcgaauaccggagaauguuaucacgggagacacacggcgggugcua
acguccgucgugaagagggaaacaacccagaccgccagcuaaggucccaa
agucaugguuaagugggaaacgaugugggaaggcccagacagccaggaug
uuggcaagcagccaucauuuaaagaaagcguaauagcucacuggucgagu
cggccugcgcggaagauguaacggggcuaaaccaugcaccgaagcugcgg
cagcgacgcuuaugcguuguuggguaggggagcguucuguaagccugcga
aggugugcugugaggcaugcuggagguaucagaagugcgaaugcugacau
aaguaacgauaaagcgggugaaaagcccgcucgccggaagaccaaggguu
ccuguccaacguuaaucggggcagggugagucgaccccuaaggcgaggcc
gaaaggcguagucgaugggaaacagguuaauauuccuguacuugguguua
cugcgaaggggggacggagaaggcuauguuggccgggcgacgguuguccc
gguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggcu
gaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcuu
ccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaaccg
acacagguggucagguagagaauaccaaggcgcuugagagaacucgggug
aaggaacuaggcaaaauggugccguaacuucgggagaaggcacgcugaua
uguaggugaggucccucgcggauggagcugaaaucagucgaagauaccag
cuggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaagug
gacguauacggugugacgccugcccggugccggaagguuaauugaugggg
uuagcgcaagcgaagcucuugaucgaagccccgguaaacggcggccgguc
cuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaauggc
guaaugauggccaggcugucuccacccgagacucagugaaauugaacucg
cugugaagaugcaguguacccgcggcaagacggaaagaccccgugaaccu
uuacuauagcuugacacugaacauugagccuugauguguaggauaggugg
gaggcuuugaaguguggacgccagucugcauggagccgaccuugaaauac
cacccuuuaauguuugauguucuaacguugacccguaauccggguugcgg
acagugucugguggguaguuugacuggggcggucuccuccuaaagaguaa
cggaggagcacgaagguuggcuaauccuggucggacaucaggagguuagu
gcaauggcauaagccagcuugacugcgagcgugacggcgcgagcaggugc
gaaagcaggucauagugauccggugguucugaauggaagggccaucgcuc
aacggauaaaagguacuccggggauaacaggcugauaccgcccaagaguu
cauaucgacggcgguguuuggcaccucgaugucggcucaucacauccugg
ggcugaaguaggucccaaggguauggcuguucgccauuuaaagugguacg
cgagcuggguuuagaacgucgugagacaguucggucccuaucugccgugg
gcgcuggagaacugaggggggcugcuccuaguacgagaggaccggagugg
acgcaucacugguguucggguugucaugccaauggcacugcccgguagcu
aaaugcggaagagauaagugcugaaagcaucuaagcacgaaacuugcccc
gagaugaguucucccugacccuuuaaggguccugaaggaacguugaagac
gacgacguugauaggccggguguguaagcgcagcgaugcguugagcuaac
cgguacuaaugaaccgugaggcuuaa
..<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<.>>>>>
>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<<..
<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>...
..>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<<
...<<<<<........>>>>>.>...>>>...<<<.<<<<<........>
>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>....
..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<<<<
<<<.....<<<...<<<.<<<<...<<.<<<.>>>..>>...>>>>.>>>
..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<<<<<<....
..>>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<(((..
...<<<<<<...........<<..<<<<<..<<........<<<<<.<<.
..<<.......>>...>>........<<<......>>>..>>>>>....>
>..>>>>>.>>...........))).....>>>>>>.>>>...>>>>>>>
<<<<<<.<<....>>.>>>>>>....>>>>>>..<<<<<...<<<.....
.<<<<<<<<....>>>>>>>>...>>>..>>>>>........>>>>>><.
.....<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<...
<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...<<<...<<<
....>>>...>>>...>>>..<<<<<........>>>>>))<<<<<<<<<
<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<....(((...>>>
>>><<..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>>>>..>>>>
...>>>>...>><..<<<<<....>>>>>...>>>>>>...>>>...>>>
>.........>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<.
.....>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<
.<<...............<<<<<....<<..>>.....>>>>><<<<<<.
....<<<...<<<<.....>>>>...>>>...>>>>>>............
<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>
.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<........<<<<
<<.<<....>>..>>>>>>........>>>>>>>>..>>>>><<<..>>>
........<...........<<<<<<.....>>>>>>.....>....>>>
>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>.....>.....<<
<<<........>>>>>..<<<<<<<<.(((.[[......<<<<.[[<<<<
..<<<<<.<<<.<<<<<.<<<<<<<<<<...<<............<<<<<
..<<<......<<<<<.<<....>>.>>>>>...>>>............>
>>>>...>>...>>>>>>>>>>...<<<.<<<<<<.....>>>>>>>>>.
...>>>>>.>>>..>>>>>..<<<<.....>>>><<<<<<..........
.>>>>>>.(<<...<<<<<<<...<<<<<<.......>>>>>>.....<<
)..(((>>....>>>>>>>...<<<<..<<<<....>>>>..>>>>.<<<
....>>>.>>))).......<<<<<<<.((..>>>>..))>>>>>>>...
..........>>>>..]]>>>>.......<<<<.<.<<<<<<...<<...
....>>...>>>>>>...>>>>.>.......<<<<<.<<<<<<..<<<<<
<<<<......>>>>>>>..>>.<<<<<.....>>>>>.....>>>>>..>
...>>>.>>....<<<<<<<....>>>.>>>>....]]..)))>>>>>>>
>....<<<<<<<...<<<<..<<<<<<<...............>>>>>>>
.<<<<<...<<<<...<<<<<<<<<<<))).>>>>>>..>>>>>...>>>
>.>>>>>...<<<....<<<<<...........>>>>>....>>>.>>>>
.......>>>>>>>..<<<<<.....>>>>><....<<..<<<<<.....
..>>>>>....<<<<<<<<..<<....<<<<<....>>>>>...>>...>
>>>>.>>>.....>>..>..>>>>>>
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7yla Cryo-EM structure of 50S-HflX complex
Resolution2.52 Å
Binding residue
(original residue number in PDB)
T3 W15 T24 G26 R27 T30 R37 K39 H47 Y53 T65 K68 K72 Y75 H76 H77 T78 H80 I81 G82 I84 R95 R96 E102 A104 G107 M108 P110 P113 L114 R116 R120 N131 H132 A134 Q135 Q136
Binding residue
(residue number reindexed from 1)
T3 W15 T24 G26 R27 T30 R37 K39 H47 Y53 T65 K68 K72 Y75 H76 H77 T78 H80 I81 G82 I84 R95 R96 E102 A104 G107 M108 P110 P113 L114 R116 R120 N131 H132 A134 Q135 Q136
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0008270 zinc ion binding
GO:0048027 mRNA 5'-UTR binding
GO:0070180 large ribosomal subunit rRNA binding
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0017148 negative regulation of translation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

View graph for
Cellular Component
External links
PDB RCSB:7yla, PDBe:7yla, PDBj:7yla
PDBsum7yla
PubMed
UniProtP0AA10|RL13_ECOLI Large ribosomal subunit protein uL13 (Gene Name=rplM)

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