Structure of PDB 6y7c Chain t Binding Site BS01

Receptor Information

>6y7c Chain t (length=667) Species: 559292 (Saccharomyces cerevisiae S288C)

PDKQVSKLQRKNKAKQLRAQRILDSIENRKLFEGKNGAAKIITIVPLVND
LDPLDILYKLLKCADDEGIMVQEVDSKRIFNVHIKKFKSNLKIIIPDMTN
FLNILDCAKVADFVVFGLSGVQEVDEEFGEQIIRALELQGIASYIGVISN
LSAVHEKEKFQLDVKQSLESYFKHFFPSEERVYNLEKNSDALNVLRTLCQ
RLPRSINWRDNRGYVVADFVDFVETSPDSGDLVIEGTVRGIGFNANRLVH
IPDFGDFQLNKIEKITVFESNMNRDTLDEYAPEGTEDWSDYDEDFEYDGL
TTARYDDHGFLPGREQTSKKAAVPKGTSDYQAKWYLDDVISPEEEERQLR
EFRDMEKEDREFPDEIELEPSESAIERLKRYRGLKNLYNCDWQVDEKDPS
SPAEWKRLLRIGNYKNTKNRIIKETKNEAQAIAGDRIRMFIRFPKFLLEK
IQDPKQLLFAVYGLLLHEHKNAVVNFSLQRWEQYDKPVPSQEPIVVQYGV
RRYTIQPLFSQGSNSPNNVHKYERFLHPDTVSVATCIAPVDFTQSPAIFF
KPSPTDAKNIELIGHGTFLNADHSRILAKRAILTGHPFRFHKTVVTVRYM
FFRPEDVEWFKSIPLFTKSGRSGFIKESLGTHGYFKATFDGKLSAQDVVA
MSLYKRMWPMPSLPWNG

Ligand information

>6y7c Chain 2 (length=1735)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccaggacuuu
uacuuugaaaaaauuagaguguucaaagcaggcguauugcucgaauauau
uagcauggaauaauagaauaggacguuugguucuauuuuguugguuucua
ggaccaucguaaugauuaauagggacggucgggggcaucaguauucaauu
gucagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagca
uuugccaaggacguuuucauuaaucaagaacgaaaguuaggggaucgaag
augaucagauaccgucguagucuuaaccauaaacuaugccgacuagggau
cgggugguguuuuuuuaaugacccacucggcaccuuacgagaaaucaaag
ucuuuggguucuggggggaguauggucgcaaggcugaaacuuaaaggaau
ugacggaagggcaccaccaggaguggagccugcggcuuaauuugacucaa
cacggggaaacucaccagguccagacacaauaaggauugacagauugaga
gcucuuucuugauuuugugggugguggugcauggccguucuuaguugguu
uugucugcuuaauugcgauaacgaacgagaccuuaaccuacuaaauagug
gugcuagcauuugcugguuauccacuucuuagagggacuaucgguuucaa
gccgauggaaguuugaggcaauaacaggucugugaugcccuuagacguuc
ugggccgcacgcgcgcuacacugacggagccagcgagucuaaccuuggcc
gagaggucuugguaaucuugugaaacuccgucgugcuggggauagagcau
uguaauuauugcucuucaacgaggaauuccuaguaagcgcaagucaucag
cuugcguugauuacgucccugcccuuuguacacaccgcccgucgcuagua
ccgauugaauggcuuagugaggccucaggaucugcuuagagaucucagag
cggagaauuuggacaaacuuggucauuuagaggaacuaaaagucguaaca
agguuuccguaggugaaccugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6y7c Good Vibrations: Structural Remodeling of Maturing Yeast Pre-40S Ribosomal Particles Followed by Cryo-Electron Microscopy.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): L52 Q53 K55 K57 Q60 L61 R62 R65 K203 F204 R240 Q244 R245 Y399 L749
• Binding residue (residue number reindexed from 1): L8 Q9 K11 K13 Q16 L17 R18 R21 K159 F160 R196 Q200 R201 Y330 L629

Gene Ontology

Molecular Function

• GO:0003924 GTPase activity
• GO:0005525 GTP binding
• GO:0034511 U3 snoRNA binding
• GO:0043021 ribonucleoprotein complex binding

Biological Process

• GO:0000461 endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (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:0000479 endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0030686 90S preribosome
• GO:0030688 preribosome, small subunit precursor

External links

• PDB: RCSB:6y7c, PDBe:6y7c, PDBj:6y7c
• PDBsum: 6y7c
• PubMed: 32138239
• UniProt: Q07381|TSR1_YEAST Ribosome biogenesis protein TSR1 (Gene Name=TSR1)