Structure of PDB 5wyk Chain MB Binding Site BS01

Receptor Information

>5wyk Chain MB (length=184) Species: 559292 (Saccharomyces cerevisiae S288C)

MDPRIIVTTSRDPSTRLSQFAKEIKLLFPNAVRLNRGNYVMPNLVDACKK
SGTTDLVVLHEHRGVPTSLTISHFPHGPTAQFSLHNVVMRHDIINAGNQS
EVNPHLIFDNFTTALGKRVVCILKHLFNAGPKKDSERVITFANRGDFISV
RQHVYVRTREGVEIAEVGPRFEMRLFELRLGTLE

Ligand information

>5wyk Chain SA (length=1000)

guugauccugcagucauaugcuugucucaaagccaugcaauggcucauua
aaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacugug
guaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagau
guauuuauuagauucauaauaacuuuucgaaucgcauggccuugugcugg
cgaugguucauucaaauuucugcccuaucaacuuucgaugguaggauagu
ggccuaccaugguuucaacggguaacggggaauaaggguucgauuccgga
gagggagccugagaaacggcuaccacauccaaggaagggcaggcgcuuac
ccaauccuaauucagggagguagugacaauaaauaacgauacagggccca
uucgggucuuguaauuggaaugaguacaauguaaauaccuuaacgaggaa
caauuggagucuggucagcagccgcgcagcuccaauagcguauauuaagc
ucguaguugaacuuuaauagggacggucgggggcaucaguauucaauugu
cagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcauu
ugccaaggacguuuucauuaaucaagaacgaauagggaucgggugguguu
uuuuuaaugacccacucggcaccuuacgagaaaucggaguauggucgcaa
ugacggaagggcaccaccaggaguggagccugcggcacucaacacacgcg
cgcuacacugacggagccagcgagccuuggccgagaggucuugguaaaaa
cuccgucgugcaacgaggaauuccuaguaagcgcaagucaucagcuugcg
uugauuacgucccugcccuuuguacacaccgcccgucgcuaguaccgauu
gaauggcuuagugaggccucaggaucugcgcggagaauuuggacaaacuu
ggucauuuagaggaacuaaaagucguaacaagucauuaaagaaauuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5wyk Molecular architecture of the 90S small subunit pre-ribosome.
• Resolution: 4.5 Å
• Binding residue (original residue number in PDB): R94 S97 T98 K105 N118 G120 Y122 V123 E144 V171 I177 N178 Q182 K215 E260 L261
• Binding residue (residue number reindexed from 1): R11 S14 T15 K22 N35 G37 Y39 V40 E61 V88 I94 N95 Q99 K132 E177 L178

Gene Ontology

Molecular Function

• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0030515 snoRNA binding
• GO:0042134 rRNA primary transcript binding
• GO:0043047 single-stranded telomeric DNA binding

Biological Process

• GO:0006364 rRNA processing
• GO:0030490 maturation of SSU-rRNA
• GO:0042254 ribosome biogenesis
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0030686 90S preribosome
• GO:0032040 small-subunit processome
• GO:0034457 Mpp10 complex
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5wyk, PDBe:5wyk, PDBj:5wyk
• PDBsum: 5wyk
• PubMed: 28244370
• UniProt: P53941|IMP4_YEAST U3 small nucleolar ribonucleoprotein protein IMP4 (Gene Name=IMP4)