Structure of PDB 6lqr Chain 5C Binding Site BS03

Receptor Information

>6lqr Chain 5C (length=458) Species: 559292 (Saccharomyces cerevisiae S288C)

KERENQNKFERSTYTNNQTKDKKLRAGLKKIDEQYKKAVSSAAATDYLLP
ESNGYLEPENELEKTFKVQQSEIKSSVDVSTANKALDLSLKEFGPYHIKY
AKNGTHLLITGRKGHVASMDWRKGQLRAELFLNETCHSATYLQNEQYFAV
AQKKYTFIYDHEGTELHRLKQHIEARHLDFLPYHYLLVTAGETGWLKYHD
VSTGQLVSELRTKAGPTMAMAQNPWNAVMHLGHSNGTVSLWSPSMPEPLV
KLLSARGPVNSIAIDRSGYYMATTGADRSMKIWDIRNFKQLHSVESLPTP
GTNVSISDTGLLALSRGPHVTLWKDALKLSGDSKPCFGSMGGNPHRNTPY
MSHLFAGNKVENLGFVPFEDLLGVGHQTGITNLIVPGAGEANYDALELNP
FETKKQRQEQEVRTLLNKLPADTITLDPNSIGSVDKRSSTIRLNAKDLDV
IEEALSRF

Ligand information

>6lqr Chain SA (length=1283)

aagauaguuaucugguugauccugccaguagucauaugcuugucucagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaaggcucau
uaaaucaguuaucguuuauuugauaguuccaugguauaacugugguaauu
cuagagcuaauacaugcuaaucucgacccuuuggaagagauguauuuauu
agaucaaugucuucggacucuuugaugaaauaacuuuucgaaucgcaugg
ccuugugcuggcgaugguucauucaaauuucugcccuaucaacuuucgau
gguaggauaguggccuaccaugguuucaacggguaacggggaauaagggu
ucgauuccggagagggagccugagaaacggcuaccacauccaaggaaggc
agcaggccaaauuacccaauccuaauucagggagguagugacaauaaaua
acgauacagggcccauucgggucuuguaauuggaaugaguacaauguaaa
uaccuuaacgaggaacaauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguuguugcagaagcucguagu
ugaacuggcccgguuggccgguccggauuuccaacggggccuugguucua
uuuucuaggacugauuaauagggacggucgggggcaucaguauucaauug
ucagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcau
uugccaaggacguuuucauuaaucaagaacgccgacuagggaucgggugg
uguuuuuuuaaugacccacucggcaccuuacgagacuggggggaguaugg
ucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggagug
gagccugcggcucaacacggggaaacucaccagguccagacacaauaagg
auugacauucuugauuuugugggugguggugcauugaugcccuuguucug
ggccacgcgcgcuacacugacggagccagcgagucuagugaaacuccguc
gugcuggcaacgaggaauuccuaguaagcgcaagucaucagcuugcguug
auuacgucccugcccuuuguacacaccgcccgucgcuaguaccgauugaa
uggcuuagugaggccucaggaucugcuuagagaagggggcaacuccaucu
cagagcggagaauuuggacaaacuuggucauuuagaggaacuaaaagugg
uuuccguaggugaaccugcggaaggaucauuaa

............................<<<<.<<<<<<........<<<
.<<...<<....<<....<<..........>>...>>.>>.....<<<..
.....<<<..<<..<<....<<<..........<.....<<.<<......
.>>.>>......>.......<<<<............>>>>.....<<<<<
...<<<<..............>>>>...>>>>>.........<<<<...<
<.....>>..>>>>....>>>...>>>>..>>>.<<<....<<<....<<
<<<<<<.......>>>>>>>>>>>......>>>.....<<..........
.....>>..>>>.<<.<<<..........>>>.>>.<.<<....>>.>..
..>>>>>......<<<....<<<.....>>>..>>>..............
.<<<<<<<.<<<<<....>>>>>.>>>.>>>>......<<..<.......
....>..>>.........<<<<<<.......<<<....>>>.........
.........>>>>>>..>>>>>>>>>>.........<....<.<<...<<
<.<<..<<<<<.<<<<<..<.......>..>>>>>.>>>>>.<..<<..<
...>..>>.>....>>....<<<<<<.<<...<<<<..<<..<<<<<<.<
...<<<......>>>......>.>>>>>>..>>.......<<....>>..
.>>>>...>>>>>.>>>...>>>...>>.>..<<...<<<..<<<<<<<<
.<<<........>>>>>>>>>>>..>>>..>>.....>............
........<<.........>>.....<<<<<<<<<<<<..<<.<<<<<<.
.<<<.<<<<.......................<<.<....<<<<<.....
...<.....>......>>>>>......<<<........>>>...>.>>..
.....>>>>.>>>.....<<<<<<<..................>>>>>>>
................>>>>>>....<<<<<<<<.......>>>>>>>>.
.....>>...>>>>>>>............>>>>>..<<<<.<<.....<<
<<<<<.<<<..<.<<......<<<<<<<...<<.<<<......>>>.>>.
..>>>>>>>......>>.>..>>>.>>>>>>>....>>.>>>>.......
.<<<<<<<<<....>>>>>>>>>..........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lqr Cryo-EM structure of 90 S small ribosomal subunit precursors in transition states.
• Resolution: 8.6 Å
• Binding residue (original residue number in PDB): D39 K40 K41 A44 K464
• Binding residue (residue number reindexed from 1): D21 K22 K23 A26 K446

Gene Ontology

Molecular Function

• GO:0003674 molecular_function
• GO:0005515 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:0000462 maturation of SSU-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:0030686 90S preribosome
• GO:0030688 preribosome, small subunit precursor
• GO:0032040 small-subunit processome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lqr, PDBe:6lqr, PDBj:6lqr
• PDBsum: 6lqr
• PubMed: 32943522
• UniProt: P40055|UTP7_YEAST U3 small nucleolar RNA-associated protein 7 (Gene Name=UTP7)