Structure of PDB 6lqq Chain RE Binding Site BS01

Receptor Information

>6lqq Chain RE (length=1079) Species: 559292 (Saccharomyces cerevisiae S288C)

SNIFKLQIDELLEQVKLKQKHVLKVEKFLHKLYDILQEIPDWEEKSLAEV
DSFFKNKIVSVPFVDPKPIPQNTNYKFNYKKPDISLIGSFALKAGIYQPN
GSSIDTLLTMPKELFEKKDFLNFRCLHKRSVYLAYLTHHLLILLKKDKLD
SFLQLEYSYFDNDPLLPILRISCSKDYNFYKTRFSINLLIGFPYKVFEPK
KLLPNRNCIRILPATPLYNFSVLSSSTHENYLKYLYKTKKQTESFVEATV
LGRLWLQQRGFSSNMSHSGSLGGFGTFEFTILMAALLNGGGINSNKILLH
GFSSYQLFKGVIKYLATMDLCHDGHLQFHSNPASKYIDEGFQTPTLFDKS
TKVNILTKMTVSSYQILKEYAGETLRMLNNVVQDQFSNIFLTNISRFDNL
KYDLCYDVQLPLGKYNNLETSLAATFGSMERVKFITLENFLAHKITNVAR
YALGDRIKYIQIEMVGQKSDFPITKRKVYSNTGGNHFNFDFVRVKLIVNP
SECDKLVTKGPAHSETMSTEAAVFKNFWGIKSSLRRFKDGSITHCCVWST
SSSEPIISSIVNFALQKHVSKKAQISNETIKKFHNFLPLPNLPSSAKTSV
LNLSSFFNLKKSFDDLYKIIFQMKLPLSVKSILPVGSAFRYTSLCQPVPF
AYSDPDFFQDVILEFETSPKWPDEITSLEKAKTAFLLKIQEELSANSSTY
RSFFSRDESIPYNLEIVTLNILTPEGYGFKFRVLTERDEILYLRAIANAR
NELKPELEATFLKFTAKYLASVRHTRTLENISHSYQFYSPVVRLFKRWLD
THLLLGHITDELAELIAIKPFVDPAPYFIPGSLENGFLKVLKFISQWNWK
DDPLILDLVKPEERLTLAQYKGIQMNFTNLRNSDPNGTHLQFFVASKNDP
SGILYSSGIPLPIATRLTALAKVAVNLLQTHGLNQQTINLLFTPGLKDYD
FVVDLRTPIGLKSSCGILSAPSNFPENLNDLSEKMDPTYQLVKYLNLKYK
NSLILSSRKYIGVNGGEKGDKNVITGLIKPLFKGAHKFRVNLDCNVKPVD
DENVILNKEAIFHEIAAFGNDMVINFETD

Ligand information

>6lqq Chain SA (length=1323)

aagauaguuaucugguugauccugccaguagucauaugcuugucucagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaaggcucau
uaaaucaguuaucguuuauuugauaguuccaugguauaacugugguaauu
cuagagcuaauacaugcuaaucucgacccuuuggaagagauguauuuauu
agaucaaugucuucggacucuuugaugaaauaacuuuucgaaucgcaugg
ccuugugcuggcgaugguucauucaaauuucugcccuaucaacuuucgau
gguaggauaguggccuaccaugguuucaacggguaacggggaauaagggu
ucgauuccggagagggagccugagaaacggcuaccacauccaaggaaggc
agcaggccaaauuacccaauccuaauucagggagguagugacaauaaaua
acgauacagggcccauucgggucuuguaauuggaaugaguacaauguaaa
uaccuuaacgaggaacaauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguuguugcagaagcucguagu
ugaacuggcccgguuggccgguccggauuuccaacggggccuugguucua
uuuucuaggacugauuaauagggacggucgggggcaucaguauucaauug
ucagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcau
uugccaaggacguuuucauuaaucaagaacgaccauaaacuaugccgacu
agggaucgggugguguuuuuuuaaugacccacucggcaccuuacgagaac
uggggggaguauggucgcaaggcugaaacuuaaaggaauugacggaaggg
caccaccaggaguggagccugcggcucaacacggggaaacucaccagguc
cagacacaauaaggauugacauucuugauuuugugggugguggugcauug
augcccuuguucugggccacgcgcgcuacacugacggagccagcgagucu
aaccuuggccgagaggucuugguaaucuugugaaacuccgucgugcuggc
aacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuacguc
ccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcuuag
ugaggccucaggaucugcuuagagaagggggcaacuccaucucagagcgg
agaauuuggacaaacuuggucauuuagaggaacuaaaagucguaacaagg
uuuccguaggugaaccugcggaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lqq Cryo-EM structure of 90 S small ribosomal subunit precursors in transition states.
• Resolution: 4.1 Å
• Binding residue (original residue number in PDB): N171 N173 K175 E215 K217 K306 P790 K791 W792 R858 R865
• Binding residue (residue number reindexed from 1): N72 N74 K76 E116 K118 K200 P669 K670 W671 R737 R744

Gene Ontology

Molecular Function

• GO:0003674 molecular_function
• GO:0003723 RNA binding
• GO:0005515 protein binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0006364 rRNA processing
• GO:0006409 tRNA export from nucleus
• GO:0030490 maturation of SSU-rRNA
• GO:0042254 ribosome biogenesis
• GO:0042790 nucleolar large rRNA transcription by RNA polymerase I
• GO:0060962 regulation of ribosomal protein gene transcription by RNA polymerase II

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0030686 90S preribosome
• GO:0032040 small-subunit processome
• GO:0032545 CURI complex
• GO:0034456 UTP-C complex
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lqq, PDBe:6lqq, PDBj:6lqq
• PDBsum: 6lqq
• PubMed: 32943522
• UniProt: P53254|UTP22_YEAST U3 small nucleolar RNA-associated protein 22 (Gene Name=UTP22)