Structure of PDB 5x8p Chain m Binding Site BS02

Receptor Information
>5x8p Chain m (length=110) Species: 3562 (Spinacia oleracea) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKKGGIGHGGLQIECIRIGGVEIPNHKRVEYSLQYIHGIGRSRSRQILLD
LNFDNKVTKDLSEEEVIILRKEKRFNRVAIERLKEIRCYRGIRHKLGLPV
RGQRTKNNCR
Ligand information
>5x8p Chain a (length=1480) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ucauggagaguucgauccuggcucaggaugaacgcuggcggcaugcuuaa
cacaugcaagucggacgggaaguguuuccaguggcggacgggugaguaac
gcguaagaaccugcccuugggaggggaacaacagcuggaaacggcugcua
auaccccguaggcugagaagcaaaaggaggaauccgcccgaggaggggcu
cgcgucugauuagcuaguuggugagguaauagcuuaccaaggcgaugauc
aguagcugguccgagaggaugaucagccacacugggacugagacacggcc
cagacuccuacgggaggcagcaguggggaauuuuccgcaaugggcgaaag
ccugacggagcaaugccgcguggaggcagaaggcccacgggucgugaacu
ucuuuucccggagaagaagcaaugacgguauccggggaauaagcaucggc
uaacucugugccagcagccgcgguaagacagaggaugcaagcguuauccg
gaaugauugggcguaaagcgucuguagguggcuuuuuaaguccgccguca
aaucccagggcucaacccuggacaggcgguggaaacuaccaagcuggagu
acgguaggggcagagggaauuuccgguggagcggugaaaugcguagagau
cggaaagaacaccaacggcgaaagcacucugcugggccgacacugacacu
gagagacgaaagcuaggggagcgaaugggauuagauaccccaguaguccu
agccguaaacgauggauacuaggcgcugugcguaucgacccgugcagugu
uguagcuaacgcguuaaguaucccgccuggggaguacguucgcaagaaug
aaacucaaaggaauugacgggggcccgcacaagcgguggagcaugugguu
uaauucgaugcaaagcgaagaaccuuaccagggcuugacaugccgcgaau
ccucuugaaagagaggggugccuucgggaacgcggacacagguggugcau
ggcugucgucagcucgugccguaagguguuggguuaagucccgcaacgag
cgcaacccucguguuuaguugccaacguguuuggaacccugaacagacug
ccggugauaagccggaggaaggugaggaugacgucaagucaucaugcccc
uuaugcccugggcgacacacgugcuacaauggccgggacaaagggucgcg
aucccgcgagggugagcuaaccccaaaaacccguccucaguucggauugc
aggcugcaacucgccugcaugaagccggaaucgcuaguaaucgccgguca
gccauacggcggugaauucguucccgggccuuguacacaccgcccgucac
acuaugggagcuggccaugcccgaagucguuaccuuaaccgcaaggaggg
ggaugccgaaggcagggcuagugacuggagugaagucguaacaagguagc
cguacuggaaggugcggcuggaucaccucc
.......<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....
<<<.<<<..<<<..<<.<<<<<..>>>>>.>>>>>......<<.......
<<<<.<<..<<<..<<<<<<<.<<<<.....<<<<<......>>>>>...
...>>>>....<<<....>>>....<<<....>>>.>>>>>>>.>>>.>>
.>>>><<<....<<<..<<<<<<<<.......>>>>>>>>>>>......>
>>..<<<<<<<<....>>>>...>>>>.>>.<<<<<.<.........>>>
>>>.<<<<....>>>>...>>>>>>.........<<<....<<<<....>
>>>..>>>..>>.>>>>>>..<<<<......<<<<<..>>>>>.....>>
>>...<<<<<<<..................>>>>>>>.....<<<<<(((
...<<<<<.....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>.
.........<<<((.....<<<<...<<<.<<<<..<.<<<<<<<<<<<.
....<<<<<<.....>>>>>>...>>>>>>>>>..>>>..>>>>...<<<
.<<<<...<<<<<<<....<<<<<<<<...<<<......>>>......>>
>>>>>>...........<<....>>.>>>>>>>..>>>>..>>>...>>>
...>>>>....<<<<<<...<<...<<<<.<.....>.>>>>...>>>>>
>>>..........<<<<<<..<<<<<<<<<<<........>>>>>>>>>>
>...<<..))>>.....>>>>>>.>>>.<<<......<<<<....>>>>.
...>>>..)))).]<<<<<.<<<<<<<.<<.<<<<<<..<<<<<<<<<<.
.....<<........>>..........<<<<<<<......<<<<<<<..<
<<<<<<....>>>>>>>...<<....>>..>>>>>.>>.<<<.<<<..<<
<<<<.......<<<<<<<<<....>>>..<<<<......>>>>..>>>>>
>.....<<<<.<<<<<<<...<<<<.....>>>>....>>>>>>>.....
<<<<<.....>>>>>........>>>>.........>>>...>>>>>>>>
>...>>>>>>>...>>.>>>>>>>>.....<<.<<<<.....<<<..<<.
..<<<....>>>...>>....>>>.....>>>>.>>......<....<<<
<<<<........>>>>>>>....>.....>>>>>>....<<<<<<<....
......>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<.<
<<<.<<<..<<<<<<<.<<<<....<.<<<<.<<<<..<<....>>.>>>
>>>>>.>...>>>>.>>>>>>>..>>>.>>>>..>.>>...>.....<<<
<<<<<<....>>>>>>>>>...........
Receptor-Ligand Complex Structure
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PDB5x8p Unique localization of the plastid-specific ribosomal proteins in the chloroplast ribosome small subunit provides mechanistic insights into the chloroplastic translation
Resolution3.4 Å
Binding residue
(original residue number in PDB)		Q43 I44 I47 I54 P55 N56 H57 K58 R72 E116 Y120 R121 H125 K126 L127 G128 L129 P130 V131 R132 G133 Q134 R135 K137 N138
Binding residue
(residue number reindexed from 1)		Q12 I13 I16 I23 P24 N25 H26 K27 R41 E85 Y89 R90 H94 K95 L96 G97 L98 P99 V100 R101 G102 Q103 R104 K106 N107
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome

View graph for
Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5x8p, PDBe:5x8p, PDBj:5x8p
PDBsum5x8p
PubMed28582576
UniProtP82163|RR13_SPIOL Small ribosomal subunit protein uS13c (Gene Name=RPS13)

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