Structure of PDB 3j6b Chain I Binding Site BS01

Receptor Information

>3j6b Chain I (length=125) Species: 4932 (Saccharomyces cerevisiae)

MIFLKSVIKVIDNSGAQLAECIKVIRKGSPKSPAMVGDRIVCVIQKAKPV
KKGDICHAIVVRSKQRNMCRKDGSTVAFGDTACVLINKNTGEPLGTRIMA
NDGCVDRTLKDKGYNKICSLASRVI

Ligand information

>3j6b Chain A (length=2713)

guagaauaauagauuugaaauauuuauuauauagauuuaaagagauaauc
auggaguauaauaauuaaauuuaaauuuaauauaacuauuaauagaaggu
uacuaauaaauuaauaauuaauuuuaaaaccuaaagguaaaccuuuauau
uaauaauguuaugaauaauuauuaauaauaauaaacuaagugaacugaaa
caucuaaguaacuuaaggauaagaaaucaacagagauauuaugaguauug
gugagagaaaauaauaaaggucuaauaaguauuaugugaaaaaaauguaa
gaaaauaggauaacaaauucuaagacuaaauacuauuaauaaguauagua
aguaccguaagggaaaguaugaaaaugauuauuuuauaagcaaucaugaa
uauauuauauuauauuaaugauguaccuuuuguauaaugggucagcaagu
aauuaauauuaguaaaacaauaaguuauaaauaaauagaauauauauaaa
aaaauauauuaaauauuuaauuaauauuaauugacccgaaagcaaacgau
cuaacuaugauaagauggauaaacgaucgaacagguugauguugcaauau
caucugauuaauugugguuaguagugaaagacaaaucugguuugcagaua
gcugguuuucuaugaaauauauguaaguauagccuuuauaaauaauaauu
auuauauaauauauuauauaaagaaugguacagcaauuaauauauauuag
ggaacuaguuuuuuaauaauauuaaaucucgaaauauuuaauuauauaua
auaaagagucagauuaugugcgauaagguaaauaaucuaaagggaaacag
cccagauuaagauauaaaguuccuaauaaauaauaagugaaauaaauauu
aaaauauuaauauuuaaaaucaaauauauauauauuuguuaauagauaau
auacggaucuuaauaauaagaauuauuuaauuccuuggaauauuauauuu
uaaaauauaaauacugaauaucuaaauauuauuauuacuaauaauaauaa
uaugguaauagaacauuuaaugauaauauauauuaguuauuaauuaauau
auguauuaauuaaauagagaaugcugacaugaguaacgaaaaaaagguau
aaaccuuuucaccuaaaacauaagguuuaacuauaaaaguacggccccua
auuaaauuaaauauaaauauauuuaagaugggauaaucuauauuaauaau
uuaucuuaaaauauauaauuauauuauauauuauauauuuauauaauaua
aacuaauaaagaucaggaaaauuaauguauaccguaauguagaccgacuc
agguauguaaguagagaauaugaaggugaauuagauaauuaaagggaagg
aacucggcaaagauagcucauaaguuagucaauaaagaguaauaagaaca
aaguuguacaacuguuuacuaaaaacaccgcacuuugcagaaacgauaag
uuuaaguauaaggugugaacucugcuccaugcuuaauauauaaauaaaau
uauuuaacgauaauuuaauuaaauuuagguaaauagcagccuuauuauga
ggguuauaauguagcgaaauuccuuggccuauaauugaggucccgcauga
augacguaaugauacaacaacugucuccccuuuaagcuaagugaaauuga
aaucguagugaagaugcuauguaccuucagcaagacggaaagacccuaug
cagcuuuacuguaauuagauagaucgaauuauuguuuauuauauauaaug
auaauucuaaucuuauacuuaauucuuaaguaauauauaauauauauaua
uauuauauauuauaagagacaaucucuaauugguaguuuugauggucauu
aucagcaaaaguaucugaauaaguccauaaauaaauauauaaaauuauug
aaaaaaauaauauauauuauauauauuaauuauaaauugaaauauguuua
auugaauauauuuuaguaauagauaaaaauauguacaguaaaauuguaag
gaaaacaauaauaacuuucucggaaagaauuaaauuaauauaaugguaua
acugugcgauaauuguaacacaaacgagugaaacaaguacguaaguaugg
cauaaugaacaaauaacacugauuguaaagguuauugauaacgaauaaaa
guuacgcuagggaaggguaauauagcgaaagaguagauauuguaagcuau
guuugccaccuucgacucaacauuuccucuugguuguaaaagcuaagaag
gguuugacuguucgucaauuaaaauguuacgugaguuggguuaaauacga
ugugaaucaguaugguuccuaucugcugaaggaaauauuaucaaauuaaa
ucucauuauuaguacgcaaggaccauaaugaaucaacccaugguguaucu
auugauaauaauauaauauauuuaauauauuaucuauauuaguuuauauu
uuaauuauauauuaucauaguagauaagcuaaguugauaauaaauaaaua
uugaauacauauuaaauaugaaguuguuuuaauaagauaauuaaucugau
aauuuuauacuaaaauuaauaauuauagguuuuauauauuauuuauaauu
auaauauuauaaaaauacuaauuuaucaguuaucuauauaauaucuaauc
uauuauucuauau

<<<<<<<<<<<<<<<.<<......<<<<<<<<<<<<.....<<<<<<<<<
<<...<<<<....<<<<<<<<..>>>>>>>>...<<<<<<<<<<..<<<<
.......<<<<<<<...>>>>>>>....>>>>..<<<....>>>....<<
<<<<<<<..<....>..>>>>>>>>>.........<<<<<<.....<<..
..>>......>>>>>.>..<<.....<<....>>..<<<<<<.....<<.
....>>....>>>>>>...<<<.........<<<<<<.......>>>>>>
......<<<<..((((.>>>>..>>>....>>.>>>>>>>>.>>......
....<<....>>....>>>>....>>>>>>>>>>>.......<<<<<.<<
<<<<......>>>>>>.>>>>>...<............>.<<<<<<....
<<<<<<<<<<<<<..<<<.....>>>...................<<<..
......>>>..........>>>>>>>>>>>>>..<<.<..<<<<<<<...
.<<<<<<<<<<..<<<<......>.>>>...<<<..<<<<........>>
>>.>>>....>>>>>>>>>>...<<.....>>.......>>>>>>...>.
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<<.<<<>>>.>>>>>>>>>>>>>>>..>>.>...>>>>>>>>>>>...>.
>>>>>>.>>..<<<<<<.<<<......>>>.>>>>>>....<<<......
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....)))>>.............>>>>>>><<<<<..>>>>>.<<<<<<<<
..>>>>>>>>..>>>...>>>>>>><<<<<<<<<<<<....>>>>>>>>>
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>>......>>>>>>........>>>>>><......<<....<<<<<<...
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<<<<....>>>>>>>>>.....>>>>>>>>..>>>>><<<<<........
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...<<<<<........>>>>>..<<<<<<<<.<<<.<<<....<<<<<.<
<<<<<..<<<<.<<<<<<<..<<<.<<<<<<<<<<<..........>>>>
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>>>>>>>>>>.>>>>>>....>>>>>>>>>>..>>>>..<<<<.>>>><<
<<<<...........>>>.>>>..<<....<<<.....<<<....>>>..
........<<<<<<<.....>>>>>>>...>>>.....<<<<<<<<<<<.
...>>>>>>>>>>>.................<<<<<<<....<<<<<...
....>>>>><<<..<<<<<<.>>>>>>.>>>......<<.[.(((>>...
.>>>>>>>....<<<<..<<<......>>>..>>>>.<<<....>>>.>>
)))].......<<<<<<.<<..))))..>>>>>>>>.............>
>>>..>>>>>>>..<<<<...<<<<<....<<.......>>....>>>>>
....>>>.>..<<<<<.<<<<<<..<<<<<<<<<.......>>>>>>>..
>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<<<<<<
<....>>>.>>>>...>>>..>>>>>>>>>>>.....<<<<<..<<<<<<
..<<<<<<<...............>>>>>>><<<<<<....<<<...<<<
<<<<<<<<<<<<...<<<...<....>...>>>.......<<..].]]>>
......>>.>>>>>>>>..>>>>>...>>>..>>>>>>..<<<.<..<<<
<<............>>>>>...>>>>.>>>>>>..>>>>>.....<<<<<
<<<<<.......>>>>>........<<<<<<<<....<<...<<<<<..>
>>>>.>>....>>>>>.>>>....>>>>>..>>>>>>>>>>>>>>.>>>>
>>>>>>>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3j6b Structure of the yeast mitochondrial large ribosomal subunit.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): M1 F3 L4 K5 S6 V7 I22 K23 K27 G28 S29 P30 K31 S32 V43 I68 H70 K77 Q78 R79 N80
• Binding residue (residue number reindexed from 1): M1 F3 L4 K5 S6 V7 I22 K23 K27 G28 S29 P30 K31 S32 V43 I55 H57 K64 Q65 R66 N67

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:3j6b, PDBe:3j6b, PDBj:3j6b
• PDBsum: 3j6b
• PubMed: 24675956
• UniProt: P35996|RM38_YEAST Large ribosomal subunit protein uL14m (Gene Name=MRPL38)