Structure of PDB 5wyj Chain U4 Binding Site BS01

Receptor Information

>5wyj Chain U4 (length=126) Species: 559292 (Saccharomyces cerevisiae S288C)

QAIKPPYQVLIDTNFINFSIQKKVDIVRGMMDCLLAKCNPLITDCVMAEL
EKLGPKYRIALKLARDPRIKRLSCSHKGTYADDCLVHRVLQHKCYIVATN
DAGLKQRIRKIPGIPLMSVGGHAYVI

Ligand information

>5wyj Chain SA (length=1115)

guugauccugcagucauaugcuugucucaaagccaugcaauggcucauua
aaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacugug
guaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagau
guauuuauuagauucauaauaacuuuucgaaucgcauggccuugugcugg
cgaugguucauucaaauuucugcccuaucaacuuucgaugguaggauagu
ggccuaccaugguuucaacggguaacggggaauaaggguucgauuccgga
gagggagccugagaaacggcuaccacauccaaggaagggcaggcgcuuac
ccaauccuaauucagggagguagugacaauaaauaacgauacagggccca
uucgggucuuguaauuggaaugaguacaauguaaauaccuuaacgaggaa
caauuggagucuggucagcagccgcgcagcuccaauagcguauauuaagc
ucguaguugaacuuuaauagggacggucgggggcaucaguauucaauugu
cagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcauu
ugccaaggacguuuucauuaaucaagaacgaauagggaucgggugguguu
uuuuuaaugacccacucggcaccuuacgagaaaucggaguauggucgcaa
ugacggaagggcaccaccaggaguggagccugcggcacucaacacgaaac
ucaccagguccagacacaauaaggauugacagauugagagcucuuucuug
auuuugugggugguggugcauggccguacaggucugugaugcccuuagac
guucugggccacgcgcgcuacacugacggagccagcgagccuuggccgag
aggucuugguaaaaacuccgucgugcaacgaggaauuccuaguaagcgca
agucaucagcuugcguugauuacgucccugcccuuuguacacaccgcccg
ucgcuaguaccgauugaauggcuuagugaggccucaggaucugcgcggag
aauuuggacaaacuuggucauuuagaggaacuaaaagucguaacaaguca
uuaaagaaauuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5wyj Molecular architecture of the 90S small subunit pre-ribosome.
• Resolution: 8.7 Å
• Binding residue (original residue number in PDB): K112 Q162
• Binding residue (residue number reindexed from 1): K56 Q106

Gene Ontology

Molecular Function

• GO:0004521 RNA endonuclease activity
• GO:0004540 RNA nuclease activity
• GO:0005515 protein binding
• GO:0008270 zinc ion 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:0032040 small-subunit processome

External links

• PDB: RCSB:5wyj, PDBe:5wyj, PDBj:5wyj
• PDBsum: 5wyj
• PubMed: 28244370
• UniProt: Q05498|FCF1_YEAST rRNA-processing protein FCF1 (Gene Name=FCF1)