Structure of PDB 6c0f Chain j Binding Site BS01

Receptor Information

>6c0f Chain j (length=72) Species: 1247190 (Saccharomyces cerevisiae BY4741)

KSHTLCNRCGRRSFHVQKKTCSSCGYPAAKTRSYNWGAKAKRRHTTGTGR
MRYLKHVSRRFKNGFQTGSASK

Ligand information

>6c0f Chain 1 (length=1357)

guuugaccucaaaucagguaggaguacccgcugaaaagcggaggaaaaga
aaccaaccgggauugccuuaguaacggcgagugaagcggcaaaagcucaa
auuugaaaucugguaccuucggugcccgaguuguaauuuggagagggcaa
cuuuggggccguuccuugucuauguuccuuggaacaggacgucauagagg
gugagaaucccguguggcgaggagugcgguucuuuguaaagugccuucga
agagucgaguuguuuugcagcucuaagugggugguaaauuccaucuaaag
cuaaauauuggcgagagaccgauagcgaacaaguacagugauggaaagau
gaaaagaacuuugaaaagagagugaaaaaguacgugaaauuguugaaagg
gaagggcauuugaucagacaugguguuuugugcccucugcuccuuguggg
uaggggaaucucgcauuucacugggccagcaucaguuuugguggcaggau
aaauccauaggaauguagcuugccucgguaaguauuauagccugugggaa
uacugccagcugggacugaggacugcgacguaagucaaggaugcuggcau
aaugguuauaugccgcggaccaaggagucuaacgucuaugcgaguguuug
gguguaaaacccauacgcguagguuggggccucgcaagaggugcacaauc
gaccgauccugaugucuucggauggauuugaguaagagcauagcuguugg
gacccugguuccugccgaagaacguagaguuaaggugccggaauacacgc
ucaucagaggcgcucaagcguguuaccuauacucuaccgucaggguugau
augaugcccugacgaguaggcaggcguggaggucagugacgaagccuaga
ccguaaggucgggucgaacggccucuagugcagaucuuggugguaguagc
aaauugauagaauaaucuagcgaaaccaauguuaccgcaauaguaauuga
acuuaguacgagaggaacaguucauucggauaauugguuuuugcggcugu
gcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaag
ucagaauccaugcuagaacgcggugaucuccacacaauauagauggauac
gaauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacggu
gcacuuggcggaaaggccuugggugcuugcuggcgaauugcaauggcgug
gggauaaaucauuuguauacgacuuagauguacaacgggguauuguaagc
aguagaguagccuuguuguuacgaucugcugagauuaagccuuuguuguc
ugauuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6c0f Modular assembly of the nucleolar pre-60S ribosomal subunit.
• Resolution: 3.7 Å
• Binding residue (original residue number in PDB): S15 H16 R24 S26 S35 A42 K43 T44 R45 Y47 N48 K52 A53 R55 R56 K75
• Binding residue (residue number reindexed from 1): S2 H3 R11 S13 S22 A29 K30 T31 R32 Y34 N35 K39 A40 R42 R43 K62

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0000448 cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0030687 preribosome, large subunit precursor
• GO:0044391 ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6c0f, PDBe:6c0f, PDBj:6c0f
• PDBsum: 6c0f
• PubMed: 29512650
• UniProt: P49166|RL37A_YEAST Large ribosomal subunit protein eL37A (Gene Name=RPL37A)