Structure of PDB 6zqf Chain CK Binding Site BS01

Receptor Information

>6zqf Chain CK (length=221) Species: 559292 (Saccharomyces cerevisiae S288C)

KNLSSFEKQQIEIRKQIEQLENEAVAEKKWSLKGEVKAKDRPEDALLTEE
LEFDRTAKPVPVITSEVTESLEDMIRRRIQDSNFDDLQRRTLFELSDVKS
SKSLAEIYEDDYTALSEELQKAHSEISELYANLVYKLDVLSSVHFVPKPA
STETPTISMEDAQPLYMSNASSLAPQEIYNVGKAEKDGEIRLKNGVAMSK
EELTREDKNRLRRALKRKRSK

Ligand information

>6zqf Chain D3 (length=1392)

uaucugguugauccugccaguucauaugcuugucucaaagauuaagccau
gcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcucauu
aaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacugu
gguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagaga
uguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauucau
aauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaaau
uucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuuca
acggguaacggggaauaaggguucgauuccggagagggagccugagaaac
ggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccuaa
uucagggagguagugacaauaaauaacgauacagggcccauucgggucuu
guaauuggaaugaguacaauguaaauaccuuaacgaggaacaauuggagg
gcaagucuggugccagcagccgcgguaauuccagcuccaauagcguauau
uauguugcaguuaaaaagcucguaguugaacuuugggcccgguuggccgg
ucggauuuccaacggggccuuuccuucuggcuaaccuugaguccuugugg
cucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguucaaagc
aggcguauugcucgaauauauuagcauggaauaauagaauaggacguuug
guucuauuuuguugguuucuaggaccaucguaaugauuaauagggacggu
cgggggcaucaguauucaauugucagaggugaaauucuuggauuuauuga
agacuaacuacugcgaaagcauuugccaaggacguuuucauuaaucaaga
acgaaaguuaggggaucgaagaugaucagauaccgucguagucuuaacca
uaaacuaugccgacuagggaucgggugguguuuuuuuaaugacccacucg
gcaccuuacgagaaaucaaagucuuuggguucuggggggaguauggucgc
aaggcuaaauuaaaggaauugacggaagggcaccaccaggaguggagccu
gcggcacgcgcgcuacacugacggagccagcgagucuaaccuuggccgag
aggucuugguaaucuugugaaacuccgucgugcuggggauagagcauugu
aauuauugcucuucaacgaggaauuccuaguaagcgcaagucaucagcuu
gcguugauuacgucccugcccuuuguacacaccgcccgucgcuaguaccg
gaacuaauuccguaggugaaccugcggaaggaucauuaaaga

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6zqf 90 S pre-ribosome transformation into the primordial 40 S subunit.
• Resolution: 4.9 Å
• Binding residue (original residue number in PDB): E329 A491 R527 K535 S537
• Binding residue (residue number reindexed from 1): E35 A174 R210 K218 S220

Gene Ontology

Molecular Function

• GO:0003674 molecular_function
• GO:0005515 protein binding
• GO:0042802 identical protein binding

Biological Process

• GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000472 endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000480 endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0006364 rRNA processing
• GO:0030490 maturation of SSU-rRNA
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005732 sno(s)RNA-containing ribonucleoprotein complex
• GO:0030686 90S preribosome
• GO:0032040 small-subunit processome
• GO:0034457 Mpp10 complex
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6zqf, PDBe:6zqf, PDBj:6zqf
• PDBsum: 6zqf
• PubMed: 32943521
• UniProt: P47083|MPP10_YEAST U3 small nucleolar RNA-associated protein MPP10 (Gene Name=MPP10)