Structure of PDB 6z6k Chain Sb Binding Site BS01

Receptor Information

>6z6k Chain Sb (length=81) Species: 559292 (Saccharomyces cerevisiae S288C)

VLVQDLLHPTAASEARKHKLKTLVQGPRSYFLDVKCPGCLNITTVFSHAQ
TAVTCESCSTILCTPTGGKAKLSEGTSFRRK

Ligand information

>6z6k 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: 6z6k Structure and function of yeast Lso2 and human CCDC124 bound to hibernating ribosomes.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): R17 H19 K20 L21 K22 P28 S30 F47 H49 Q51 T67 G68 K70
• Binding residue (residue number reindexed from 1): R16 H18 K19 L20 K21 P27 S29 F46 H48 Q50 T66 G67 K69

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0006412 translation

Cellular Component

• 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:6z6k, PDBe:6z6k, PDBj:6z6k
• PDBsum: 6z6k
• PubMed: 32687489
• UniProt: P35997|RS27A_YEAST Small ribosomal subunit protein eS27A (Gene Name=RPS27A)