Structure of PDB 6eri Chain AM Binding Site BS01

Receptor Information

>6eri Chain AM (length=134) Species: 3562 (Spinacia oleracea)

MLSPKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEAG
RRAMTRNARRGGKIWVRIFPDKPVTVRPAETRMGSGKGSPEYWVAVVKPG
RILYEISGVAENIARRAVAIAASKMPIRTQFIIS

Ligand information

>6eri Chain AA (length=2696)

ucaaacgaggaaaggcuuacgguggauaccuaggcacccagagacgagga
agggcguauuaaucgacgaaaugcuucggggaguugaaaauaagcagaga
uccggagauucccgaauaggucaaccuuucgaacuucugcugaauccaug
ggcaggcaagagacaaccuggcgaacugaaacaucuuaguagccagagga
aaagaaagcaaaagcgauucccguaguagcggcgagcgaaaugggagcag
ccuaaaccgugaaaacgggguugugggagagcaauacaagcgucgugcug
cuaggcgaaucaguggagugcggaacccuagauggugaaaguccaguagc
cgaaagcaucacuagcuuaugcucugacccgaguagcauggggcacgugg
aaucccgugugaaucagcaaggaccaccuugcaaggcuaaauacuccugg
gugaccgauagcgaaguaguaccgugagggaagggugaaaagaaccccca
ucggggagugaaauagaacaugaaaccguaagcucucaagcagugggagg
gggaccagacccugaccgcgugccuguugaagaaugagccggcgacucau
aggcaguggcuugguuaagggaacccaccggagccguagcgaaagcgagu
cuucauagggcaauugucacugcuuauggacccgaaccugggugaucuau
ccaugaccaggaugaagcuugggugaaacuaaguggagguccgaaccgac
ugauguugaagaaucagcggaugaguugugguuaggggugaaaugccacu
cgaacccagagcuagcugguucuccccgaaaugcguugaggcgcagcagu
ugacuggacaucuagggguaaagcacuguuucggugcgggccgcgguacc
aaaucgaggcaaacucugaauacuagauaugaccuccaaauaacaggggu
caaggucggccagugagacgaugggggauaagcuucaucgucgagaggga
aacagcccggaucaccagcuaaggccccuaaaugaccgcucagugauaaa
ggagguaggggugcagagacagccaggagguuugccuagaagcagccacc
cuugaaagagugcguaauagcucacugaucgagcgcucuugcgccgaaga
ugaacggggcuaagcggucugccgaagcugugggauguaaaaaaacaucg
guaggggagcguuccguguuagggagaaacgcgugcgugagccgcguugg
acgaagcggaagcgagaaugucggcuugaguaacgcaaacauuggugaga
auccaaugccccgaaaaccuaaggguuccuccgcaagguucguccacgga
gggugagucagggccuaagaucaggccgaaaggcguagucgauggacaac
aggugaauauuccuguacuaccccuuguuggucccgagggacggaggagg
cuagguuagccgaaagaugguuaucgguucaaggacgcaaggugacccgg
guaagaagggguagagaaaaugccucgagccaauguucgaguaccaggcg
cuacggcgcugaaguaaccgaugccauacucccaggaaaagcucgaacga
ccuucaacaaaaggguaccuguacccgaaaccgacacagguagguaggua
gagaauaccuaggggcgcgagacaacucucucuaaggaacucggcaaaau
agccccguaacuucgggagaaggggugcccccucacaaagggggucgaag
ugaccaggcccgggcgacuguuuaccaaaaacacaggucuccgcaaaguc
guaagaccauguaugggggcugacgccugcccagugccggaaggucaagg
aaguuggugaccugacaggggagccggcgaccgaagccccggugaacggc
ggccguaacuauaacgguccuaagguagcgaaauuccuugucggguaagu
uccgacccgcacgaaaggcguaacgaucugggcacugucucggagagagg
cucggugaaauagacaugucugugaagaugcggacuaccugcaccuggac
agaaagacccuaugaagcuuuacuguucccugggauuggcuuauucuaac
cuugugucaggaccuacgggccaagggacauucucagguagacaguuucu
auggggcguaggccucccaaaagguaacggaggcgugcaaagguuuccuc
gggccggacggagauuggcccucgagugcaaaggcagaagggagcuugac
ugcaagacccacccgucgagcagggacgaaagucggccuuagugauccga
cggugccgaguggaagggccgucgcucaacggauaaaaguuacucuaggg
auaacaggcugaucuuccccaagaguucacaucgacgggaagguuuggca
ccucgaugucggcucuucgccaccuggggcuguaguauguuccaaggguu
gggcuguucgcccauuaaagcgguacgugagcuggguucagaacgucgug
agacaguucgguccauauccggugugggcguuagagcauugagaggaccu
uucccuaguacgagaggaccgggaaggacgcaccucugguguaccaguua
ucgugcccacgguaaacgcuggguagccaagugcggagcggauaacugcu
gaaagcaucuaaguaguaagcccaccccaagaugagugcucuccua

.............<<<<<<<<<<.....<<..<<<<<<<<<<<.<.....
.<<<<<<.....((.>>>.....<<<<<<<..<<.))......>>.....
>>>>>>>...>>>....<<<....>>>......<<<<<<<<.........
>>>>>..>>>.>....<<<<<<.....<......>......>>>>>.>..
.......<<....>>..<<<<<<.....<<.....>>....>>>>>>..<
<<....<<<<....>>>>......<<<<<<<<......<<....<<<.<<
<<.<<<...<<.<<.....>>.>>((......<<<.....))>>>...>>
>...>>>>.>>>....>>..>>>>>..>>>.....<<<<<<<<.......
..>>>>>>>>......<<<<<..<<<<>>>>>..>>>......>>.>>>>
>>>.>>...............<<....>>....>>.........<<<<..
..>>>>..................>>>>>>>>>>........<<<<..<<
<<.......>>>>..>>>>...<.<........>.>.<<<<<<....<<<
<<<<<<<<<...<<<...<<.......>>...>>>...<<....>>..<<
<<.....>>>>.....>>>>>>>>>>>>..<<.<...<<<<<<.....<.
<<<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<<<.<
<<<<........>>>>>>>>....>>>>>>>.>...<<<.....>>>...
...>>>>>>......>.>>..<<<<<<....<<<<<....>>>>><<.<<
<<<<<....<<<<<<......<<...<<<<<<<<...<...........>
...>>>>>>>>..>>.......>>>>>>..<<<<<...........>>>>
>..>>>>>>>..>>..<<<<<<<<<<......>>>>>>>>>>....<<<.
.....>>>...<<<<.<<<...<<<(((.....<<<<<<...........
<<..<<<<<<<<<<.......<.<<<.<<<...<<.........>>...>
>>.........<<......>>...>>>.>...>>>>>>>>>>.>>.....
.....))).....>>>>>>.>>>...>>>>>>><<<<<......>>>>>.
...>>>>>><<<<<<<<...........<<<<<.<<....>>>>>>.>..
.....>>>>>>.>>.....>>>>>><......<<.....<<<<<<.....
..>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>
>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<
<<<........>>>>>))<<<<<.<<<<.<<<<.<<<<....<<<<..<<
<..<<<<<<<<<<.....(((..>>>>>....<<<<<...<<<.<<....
>>.....<<<<<<.......>>>>>>..>>>..>>>>>.....<..<<<<
<....>>>>>...>>>>>>...>>>...>>>>.........>>>>...>>
>>....>>.>>.>>>>>>>>>..>>.....<<......>>>>>>>.<<<<
.....>>>>..>>>>..<<<<....<<<<<<<<.<<..............
.<<<<<...............>>>>><<<<<<.......>>>>>>.....
.......<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<<
....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<...<<
..<<<<<<..<<<<.>>>>...>>>>>>..>>...>>>>>>>>..>>>>>
<<<<<<.......>>>>>>........<...........<<<<<<.....
>>>>>>.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.
>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.<<<.
.<......<<<<.<<<<<<..<<<<<..<<<<<<<..<<.<.>.>>...<
<<<<.<<<..........>>>>>>>>.....>>>>>>>...>>>>>..<<
<<.....>>>><<<<<<...........>>>>>>..<<...<<<<<<<..
<<<<<<<.......>>>>>>>....<<...(((>>....>>>>>>>...<
<<<..<<<......>>>..>>>>.<<<....>>>.>>))).......<<<
<<<<.<<..>>>>..>>>>>>>>>.............>>>>..>>>>>>.
......<<<<.<.<<<<<<...<<.......>>...>>>>>>...>>>>.
>.......<<<<<.<.<<<<..<<<<<<<<........>>>>>..>>>.<
<<<<.....>>>>>.....>>>>...>...>>>.>>....<<<<<<<...
.>>>.>>>>....>...>>>>>>>>>>>....<<<<<<<...<.<<..<<
<<<<<...............>>>>>>>.<<<<<...<<<<...<<<<<<<
<<<<))).>>>>>>...>>>>>...>>>>.>>>>>..<.<<.<.<<<<<<
...........>>>>>>..>>>>.>>.>.......>>>>>>>....

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6eri Structure of the chloroplast ribosome with chl-RRF and hibernation-promoting factor.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): K5 R6 R8 F9 K11 H13 R14 G15 R16 R23 W41 Q46 R52 R56 W65 R67 F69 D71 R77 E80 R82 M83 G84 S85 G86 K87 S123 K124 P126
• Binding residue (residue number reindexed from 1): K5 R6 R8 F9 K11 H13 R14 G15 R16 R23 W41 Q46 R52 R56 W65 R67 F69 D71 R77 E80 R82 M83 G84 S85 G86 K87 S123 K124 P126

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:0009507 chloroplast
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6eri, PDBe:6eri, PDBj:6eri
• PDBsum: 6eri
• PubMed: 29610536
• UniProt: P17353|RK16_SPIOL Large ribosomal subunit protein uL16c (Gene Name=rpl16)