Structure of PDB 5xyu Chain Q Binding Site BS01

Receptor Information
>5xyu Chain Q (length=91) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KGPKYTPAAPRGRRKTAIGYVVSDKMQKTIVVELEDRKSHPLYGKIIRTT
KKVKAHDENGEAGIGDRVSLMETRPLSATKRWRLVEILEKA
Ligand information
>5xyu Chain A (length=1379) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguuugauccuggcucaggacgaacgcuggcggcgugcuuaacac
augcaagucgaacggagaguggcgaacgggugaguaacacgugggugauc
ugcccugcacuuugggauaagccugggaaacgucuaauaccgaauacacc
cugcuggucgcauggccugguaggggaaagcugcggugugggaugggccc
gcggccuaucagcuuguugguggggugauggccuaccaaggcgacgacgg
guagccggccugagagggugaccggccacacugggacugagauacggccc
agacuccuacgggaggcagcaguggggaauauugcacaaugggcgcaagc
cugaugcagcgacgccgcgugagggaugacggccuguaaaccucuuucag
cacagacggugacgguaugugcagaagaaggaccggccaacuagugccag
cagccgcgguaauacguaggguccgagcguuguccggaauuacugggcgu
aaagagcucguaggugguuugucgcguuguucgugaaaacucacagcuua
acugugggcgugcgggcgauacgggcgacuagaguacugcaggggagacu
ggaauuccugguguagcgguggaaugcgcagauaucaggaggaacaccgg
uggcgaaggcgggucucugggcaguaacugacgcugaggagcgaaagcgu
ggggagcgaacaggauuagauacccugguaguccacgccguaaacggugg
guacuagguguggguuugggauccgugccguagcuaacgcauuaaguacc
ccgccuggggaguacggccgcaaggcuaaaacucaaaggaauugacgggg
gcccgcacaagcggcggagcauguggauuaauucgaugcaacgcgaagaa
ccuuaccuggguuugacaugcagagaugucgcagguggugcauggcuguc
gucagcucgugucgugagauguaacgagcgcaacccuugucucauguugc
cagcgggacucgugagagacugcccucggaggaagguggggaugacguca
agucaucaugccccuuauguccagggcuucacacaugcuacaauggccgg
uacaaagggcugcgaugccgugagguggagcgaauccuaaagccggucuc
aguucggaucggggucugcaacucgaccccgugaagucggagucgcuagu
aaucgcagaucagcaacgcugcggugaauacguucccgggccuuguacac
accgcccgucacgucaugaaagucgguaacacccgaagccgguggccuaa
cccgagggagccgucgaagguggaucggcgauugggacgaagucguaaca
agguagccguaccggaaggugcggcugga
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<.....>>>>>......<<........<<<<<<<..<<
...<<<<<<<<<<<<.....<<.........>>......>>>>.....<<
<<<.<<<<<....>>>>.>.>>>>>....<<.>>>>>>>>>>..>>>>>>
>>>.<<<....<<<..<<<<<<<<.......>>>>>>>>>>>......>>
>..<<<<<<<<....>>>>...>>>>.>>.<<<<<.<.........>>>>
>>.<<<<....>>>>...>>>>>>.........<<<....<<<<....>>
>>..>>>..>>.>>>>>>..<<<<................>>>>...<.<
<<<<.............>>>>>....>..<<<<<<<<...(((......(
(.>>>)).........)))>>>>>..>>>>>>>>>..........<<<((
.....<<<<...<<<.<<<.<<<.<<<<<<<<<<.....<<<<<<<....
.>>>>>>>...>>>>>>>..>>>>>>>>>...<<<.<<<<...<<<<<<<
....<<<<<<<<<..<<<......>>>.....>>>>>>>>.>........
..<<....>>.>>>>>>>..>>>>..>>>...>>>...>>>>....<<<<
<<...<<...<<<<.<.....>.>>>>...>>>>>>>>..........<<
<<<<..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>
>.>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<
<<<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>.....
.....<<<<<<........<<<....>>>...<<<.<<<..<<<<<<...
....<<<<<.<<<....>>>....>>>>>.....<<<<.<<<<<<....<
.....>.....>>>>>>....................>>>>.........
>>>...>>>>>>>>>....>>>>>>...>>.>>>>>>>>.....<<<<<<
<.....<<<..<<..<<<<....>>>>..>>....>>>...>>>>>>>..
....<....<<<<<<<........>>>>>>>....>.....>>>>>>...
.<<<<<<<..........>>>>>>>......>>...>>>>>>>>>>.>>.
...<..<<.<.<<<<.<<<..<<<<<...<<<<....<.<<<<..<<<..
.....>>>.>>>>.>...>>>>..>>>>>..>>>.>>>>..>.>>...>.
....<<<<<<<<<....>>>>>>>>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5xyu Cryo-EM structure of Mycobacterium smegmatis ribosome reveals two unidentified ribosomal proteins close to the functional centers.
Resolution3.45 Å
Binding residue
(original residue number in PDB)		G6 K8 Y9 T10 R17 R19 R20 K21 M32 Q33 R43 Y49 K51 I52 T55 T56 K57 K58 K60 M77 R80 P81 L82 S83 A84 T85 R87 R89
Binding residue
(residue number reindexed from 1)		G2 K4 Y5 T6 R11 R13 R14 K15 M26 Q27 R37 Y43 K45 I46 T49 T50 K51 K52 K54 M71 R74 P75 L76 S77 A78 T79 R81 R83
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
GO:0022627 cytosolic small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5xyu, PDBe:5xyu, PDBj:5xyu
PDBsum5xyu
PubMed28875450
UniProtA0QSE0|RS17_MYCS2 Small ribosomal subunit protein uS17 (Gene Name=rpsQ)

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