Structure of PDB 7wtm Chain JL Binding Site BS01

Receptor Information
>7wtm Chain JL (length=283) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QHILKNPLVAQGIVDKAQIRPSDVVLEVGPGTGNLTVRILEQAKNVVAVE
MDPRMAAELTKRVRGTPVEKKLEIMLGDFMKTELPYFDICISNTPYQISS
PLVFKLINQPRPPRVSILMFQREFALRLLARPGDSLYCRLSANVQMWANV
THIMKVGKNNFRPPPQVESSVVRLEIKNPRPQVDYNEWDGLLRIVFVRKN
RTISAGFKSTTVMDILEKNYKTFLAMNNEMVDDTKGSMHDVVKEKIDTVL
KETDLGDKRAGKCDQNDFLRLLYAFHQVGIHFS
Ligand information
>7wtm Chain C2 (length=1106) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaaauacagugaaacugcgaauggcucauua
aaucaguuaucguuuauuugauaguuccucuacaugguauaacuguggua
auucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagaugua
uuuauuagauaaaaaaucaaugucuucggacucuuugaugauucauaaua
acuuuucgaaucgcauggccuugugcuggcgaugguucauucaaauuucu
gcccuaucaacuuucgaugguaggauaguggccuaccaugguuucaacgg
guaacggggaauaaggguucgauuccggagagggagccugagaaacggcu
accacauccaaggaaggcagcaggcgcgcaaauuacccaauccuaauuca
gggagguagugacaauaaauaacgauacagggucuuguaauuggaaugag
uacaauguaaauaccuuaacgaggaacaauuggagggcaagucuggugcc
agcagccgcgguaauuccagcuccaauagcguauauuaaaguuguugcag
uuaaaaagcucguaguugaacuuugggcccgguuaacggggccuuuccuu
cuggcuaaaccaggacuuuuacuuugaaaaaauuagaguguucaaagcag
gcguauugcucgaauauauuagcauggaauaauagaauaggacguuuggu
ucuauuuuguugguuucuaggaccaucguaaugauuaauagggacggucg
ggggcaucaguauucaauugucagaggugaaauucuuggauuuauugaag
acuaacuacugcgaaagcauuugccaaggacguuuucauuaaucaagaac
gaaaguuaggggaucgaagaugaucagauaccgucguagucuuaaccaua
aacuaugccgacuagggaucgggugguguuuuuuuaaugacccacucggc
accuuacgagaaaucaaagucuuuggguucuggggggaguauggucgcaa
ggcugaaacuuaaaggaauugagguuuccguaggugaaccugcggaagga
ucauua
...<<<<....[[[[.>>>>[[[[.((((((................[[[
.[[[..<<....<<....<<.......>>...>>.>>......{{.....
...[[[..{{..{{....[[[...............<<....<<.<<...
....>>.>>.....>>.........<<<<<..<<....>>..>>>>>[..
.((((((......<<<<<<<<<<<....>>>....<<......>>)))))
).....]...<<<<..<<<.....>>>.>>>>....]]]...}}}}..]]
].<<<....<<<....<<<<<<<<.......>>>>>>>>>>>......>>
>...<<<.<<<<....>>>>....>>>.}}.<<.<<<..........>>>
.>>.<.<<<..>>>.>...]]]]]].........<<<....<<<.....>
>>..>>>...............<<<<<<<<....>>>>>.>>>......<
<..<...........>..>>.........<<<<<........<<<<.<<<
.<<....>>>>>....>>>>.>>>>>..))))))]]]].........[[[
{{.......{{...[[[.{{....<<<<<<.<<..>>.>>>>>>....<<
<<<<.<..>>>>>>>...<<<<<.<<.......<<...<.......>..<
<<.....>>>....>>......>>.>>..>>>.........[[[..((((
((((....>>>>>>>>.)))))))).]]].....}}....<<<<<<.<<.
..<<<<..<<..<<<<<<.<...<<<......>>>......>.>>>>>>.
.>>.......<<....>>...>>>>...>>>>>.>>>...]]]...}}..
....<<<<<<<...<...<<<<.........>>>>...>>>>>>>>....
......<<<.<<.<<<..<<<<<<<<.<<<........>>>>>>>>>>>.
.>>>...<<..}}>>...>>.....>>>.]]].<<<......<<<<....
>>>>....>>>..]]]]........<<<<<<<<<....>>>>>>>>>...
......
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7wtm In vitro structural maturation of an early stage pre-40S particle coupled with U3 snoRNA release and central pseudoknot formation.
Resolution3.5 Å
Binding residue
(original residue number in PDB)		Y131 Q132 Q156 E158 F159 Q201 V202 R228 R233 N235 R236 T237 A240 K243 T245 T246 R294
Binding residue
(residue number reindexed from 1)		Y96 Q97 Q121 E123 F124 Q166 V167 R193 R198 N200 R201 T202 A205 K208 T210 T211 R259
Enzymatic activity
Enzyme Commision number 2.1.1.183: 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase.
Gene Ontology
Molecular Function
GO:0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity
GO:0003723 RNA binding
GO:0008168 methyltransferase activity
GO:0052909 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity
Biological Process
GO:0000154 rRNA modification
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006364 rRNA processing
GO:0031167 rRNA methylation
GO:0032259 methylation
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7wtm, PDBe:7wtm, PDBj:7wtm
PDBsum7wtm
PubMed36263816
UniProtP41819|DIM1_YEAST Dimethyladenosine transferase (Gene Name=DIM1)

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