Structure of PDB 6z6j Chain Sf Binding Site BS01

Receptor Information

>6z6j Chain Sf (length=33) Species: 559292 (Saccharomyces cerevisiae S288C)

ECSNPTCGAGVFLANHKDRLYCGKCHSVYKVNA

Ligand information

>6z6j Chain C2 (length=1700)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaaauacagugaaacugcgaauggcucauua
aaucaguuaucguuuauuugauaguuccucuacaugguauaacuguggua
auucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagaugua
uuuauuagauaaaaaaucaaugucuucggacucuuugaugauucauaaua
acuuuucgaaucgcauggccuugugcuggcgaugguucauucaaauuucu
gcccuaucaacuuucgaugguaggauaguggccuaccaugguuucaacgg
guaacggggaauaaggguucgauuccggagagggagccugagaaacggcu
accacauccaaggaaggcagcaggcgcgcaaauuacccaauccuaauuca
gggagguagugacaauaaauaacgauacagggucuuguaauuggaaugag
uacaauguaaauaccuuaacgaggaacaauuggagggcaagucuggugcc
agcagccgcgguaauuccagcuccaauagcguauauuaaaguuguugcag
uuaaaaagcucguaguugaacuuugggcccgguuaacggggccuuuccuu
cuggcuaaaccaggacuuuuacuuugaaaaaauuagaguguucaaagcag
gcguauugcucgaauauauuagcauggaauaauagaauaggacguuuggu
ucuauuuuguugguuucuaggaccaucguaaugauuaauagggacggucg
ggggcaucaguauucaauugucagaggugaaauucuuggauuuauugaag
acuaacuacugcgaaagcauuugccaaggacguuuucauuaaucaagaac
gaaaguuaggggaucgaagaugaucagauaccgucguagucuuaaccaua
aacuaugccgacuagggaucgggugguguuuuuuuaaugacccacucggc
accuuacgagaaaucaaagucuuuggguucuggggggaguauggucgcaa
ggcugaaacuuaaaggaauugacggaagggcaccaccaggaguggagccu
gcggcuuaauuugacucaacacggggaaacucaccagguccagacacaau
aaggauugacagauugagagcucuuucuugauuuugugggugguggugca
uggccguucuuaguugguggagugauuugucugcuuaauugcgauaacga
acgagaccuuaaccuacuaaauaguggugcuagcauuugcugguuaucca
cuucuuagagggacuaucgguuucaagccgauggaaguuugaggcaauaa
caggucugugaugcccuuagacguucugggccgcacgcgcgcuacacuga
cggagccagcgagucuaaccuuggccgagaggucuugguaaucuugugaa
acuccgucgugcuggggauagagcauuguaauuauugcucuucaacgagg
aauuccuaguaagcgcaagucaucagcuugcguugauuacgucccugccc
uuuguacacaccgcccgucgcuaguaccgauugaauggcuuagugaggcc
ucaggaucugcagagcggagaauuuggacaaacuuggucauuuagaggaa
cuaaaagucguaacaagguuuccguaggugaaccugcggaaggaucauua

...<<<<<...[[[[>>>>>[[[[.((((((................[[[
.[[[..<<....<<....<<.......>>...>>.>>......{{.....
...[[[..{{..{{....[[[...............<<....<<.<<<..
...>>>.>>.....>>.........<<<<<..<......>..>>>>>[..
.((((((......<<<<<<<<<<<<..>>>>....<<......>>)))))
).....]...<<<<..<<<.....>>>.>>>>....]]]...}}}}..]]
].<<<....<<<....<<<<<<<<.......>>>>>>>>>>>......>>
>...<<<.<<<<....>>>>....>>>.}}.<<.<<<..........>>>
.>>.<.<<....>>.>...]]]]]].........<<<....<<<.....>
>>..>>>...............<<<<<<<<....>>>>>.>>>......<
<..<...........>..>>.........<<<<<((......<<<<....
.<<..))>>.......>>>>.>>>>>..))))))]]]].........[[[
{{.......{{...[[[.[[....<<<<<<.<<..>>.>>>>>>....<<
<<<<.....>>>>>>...<<<<<.<<.......<<...<.......>..<
<<.....>>>....>>......>>.>>..>>>.........[.[..((((
(((.....>>>>>>>>..))))))).].].....]]....<<<<<<.<<.
..<<<<..<<..<<<<<<.<...<<<......>>>......>.>>>>>>.
.>>.......<<....>>...>>>>...>>>>>.>>>...]]]...}}..
....<<<<<<<...<...<<<<.<.....>.>>>>...>>>>>>>>....
......<<<.<<.<<<..<<<<<<<<.<<<<.....>.>>>>>>>>>>>.
.>>>...<<..}}>>...>>.....>>>.]]].<<<......<<<<....
>>>>....>>>..]]]]..<<<<<.<<<<<<<..<<.<<<<<<..<<<.<
<<<<<......<<........>>..........<<<<<.<....<<<<<.
.......<<.<<<........>>>.>>......>>>>>.<.<<.<<<..<
<<<<<<<<....<<<.<<<<<....>>>...<<<......>>>...>>.>
>>....<<<<<.<<..<<<<..<<<<<.<<<<<<....>>>>>>...>>>
>>..>>>>.>>....<<<<<<.....>>>>>>.......>>>>>....>>
>.>>>...>.>>>>>>>>....>.>>>>>...>>.>>>>.>>>.....<<
<<<<<......<<.....<<..<<<<....>>>>..>>....>>......
.>>>>>>>...........<<<<<<..........>>>>>>.........
.>>>>>>....<<<<<<<<.......>>>>>>>>......>>...>>>>>
>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<.<<<..<.<<
..<...<<<<.....>>>>...>..>>.>..>>>.>>>>>>>>...>>.>
>>>...>.>>...>.....<<<<<<<<<....>>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6z6j Structure and function of yeast Lso2 and human CCDC124 bound to hibernating ribosomes.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): K136 R138 Y140 G142 K143 H145
• Binding residue (residue number reindexed from 1): K17 R19 Y21 G23 K24 H26

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0031386 protein tag activity
• GO:0031625 ubiquitin protein ligase binding
• GO:0046872 metal ion binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0002109 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0016567 protein ubiquitination
• GO:0019941 modification-dependent protein catabolic process
• GO:0042254 ribosome biogenesis
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0044391 ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6z6j, PDBe:6z6j, PDBj:6z6j
• PDBsum: 6z6j
• PubMed: 32687489
• UniProt: P05759|RS31_YEAST Ubiquitin-ribosomal protein eS31 fusion protein (Gene Name=RPS31)