Structure of PDB 8a98 Chain SN Binding Site BS01

Receptor Information

>8a98 Chain SN (length=101) Species: 347515 (Leishmania major strain Friedlin)

MSTYVPKPSRDNVYRFFFTEGVIACKKDRMGTWTGTLGGNTFTVPCIQVM
QLMRSLKSRNLIKEQYAWRHYYWTLNDEGIAYMRSYLHLAPSAMPNTQKP
S

Ligand information

>8a98 Chain S1 (length=1727)

gaucugguugauucugccaguagucauaugcuuguuucaaggacuuagcc
augcaugccucagaaucacugcaugcaggaaucugcgcauggcucauuac
aucagacguaaucugccgcaaaaaucuugcggccgcaaaauuggauaacu
uggcgaaacgccaagcuaauacaugaaccaaccgggugucuccacugaga
cgcccagcgaaugaaugacaguaaaaccaaugccugcaguaacacccagc
aguguugacucaauucauuccgcgaaagccggcuuccggcgucuuuugac
gaacaacugcccuaucagcuggugauggccguguaguggacugccauggc
guugacgggagcgggggauuaggguucgauuccggagagggagccugaga
aauagcuaccacuucuacggagggcagcaggcgcgcaaauugcccaaugu
caaaacaaaacgaugaggcagcgaaaagaaauagaguuguuucaaugggg
gauauuuaaacccaucccgaguaacaauuggaggacaagucuggugccag
cacccgcgguaauuccagcuccaaaagcguauauuaaugcuguugcuguu
aaaggguucguaguugaacugugggcuggcccuugcagcccgugaaagaa
acaagaaacacgggagugguugcaugucaugcaugccguccgugauuuuu
uacugugacuaaagaagcgugacuaaagcagucaugacuugaauuagaaa
gcaugggauaacaaaggagcuuuuuaaagguauuggagauuauggagcug
ugcgacaaaugcuuucuaggaaugaaggaggguaguucgggggagaacgu
acuggggcgucagaggugaaauucuuagaccgcaccaagacgaacuacag
cgaaggcauucuucaaggauaccuuccucaaucaagaaccaaagugugga
gaucgaagaugauuagagaccauuguaguccacacugcaaacgaugacac
ccaugaauuggggauaucuugcacguuuucuguuuucacgcgaaagcuuu
gagguuacagucucaggggggaguacguucgcaagagugaaacuuaaaga
aauugacggaauggcaccacaagacguggagcgugcgguuuaauuugacu
caacacggggaacuuuaccagauccggacaggaugaggauugacagauug
aguguucuuucucgauucccugaaugguggugcauggccgcuuuuggucg
guggagugauuuguuugguugauuccgucaacggacgagauccaagcugc
ccaguagauuucagaauuuuucgggaauucuucucugcgggauuccuuug
uaugcacaaggugaaauuuugggcaacagcaggucugugaugcuccucaa
uguucugggcgacacgcgcacuacaaugucagugagaacaagaacgaacc
uacuugaucaaaagaguggggaaaccccggaaucacauagacccacuugg
gaccgaggauugcaauuauuggucgcgcaacgaggaaugucucguaggcg
cagcucaucaaacugugccgauuacgucccugccauuuguacacaccgcc
cgucguuguuuccgaugauggugcaauacaggugaucggacaggcgaaag
uucaccgauauuucuucaauagaggaagcaaaagucguaacaagguagcu
guaggugaaccugcagcuggaucauuu

...<<<<<.{.((((>>>>><<<<.<<<<<<...<<<...<......<<<
.<<<..<<....<<.....<......>....>>.>>......<<......
..<<<..<<..<<...<<.<<.....<<<<<..>>>>>...<<.....<<
<<<<.....>>>>>>......>>..........<<<<<<<<<....>>>>
>>>>>.<<<<<<<<<<.....((.((.{..{<<..>>.............
............>>>>>>>>.>>....<<<<<...>>>>>...>>.>>..
>>>>..>>>.<<<....<<<....<<<<<.<<.......>>.>>>>>>>>
......>>>..<<<<<<<<....>>>>...>>>>.>>.<<.<<<......
....>>>.>>.<<<<<..>>>>>...>>>>>>.........<<<....<<
<..........>>>..>>>..>....>>>....<<<....>>>.....<<
<<............>>>>.........<<<<<((....<.<<<<.....<
<..))>>.......>>>>>>>>>>..>>>>>>>>>>.........<<<[[
.....<<<<...<<<.......<...<.......>...>...........
.....<...............<<<<.......>>>>.........>...<
<<<<<<<.......<<...<.......>..<<<..>>>.....>>.....
.>>>>>..>>>..........<<.<<.<<.<...}..}.)).))>..>>.
>>.>>........................<<<<<..<<...<<<<<<<<.
.<<<<.<<<...<<<......>>>......>>>.>>>.>.>>.......<
<....>>.>>>>>>...>>>>>.>>....>>>...>>>>...<<<<<<<<
...<...<<<<.<.....>.>>>>...>>>>>>>>>.........<<<.<
<...<<<<.<<<<<<.<.<.>.>.>>>>>>.>>>>....<<..]]>>...
..>>.....>>>.>>>.<<<......<<<<....>>>>....>>>..)))
).}<<<<<.<<<<<<<..<<.<<<<<<..<<.<<<<<<<......<<...
.....>>..........<<<<<......<<<<.........<<.<<<...
.....>>>.>>.......>>>>.<.<<.<<<..<<.<<<<<<....<<<.
<<<<<....>>>...<<<......>>>...>>.>>>....<<<<<.<<<<
.....<<<.<<<.<<<...>>>..>>>.>>>.....>>>>....<<<<..
.......>>>>.......>>>>>....>>>.>>>.....>>>>>>>>...
...>>>>>...>>.>>>>>.>>.....<<<.<<<.......<......<<
<<<<<........>>>>>>>....>........>>>...>>>......<.
...<<<..<..........>..>>>.....>.....>>>>>>....<<<<
<<<.........>>>>>>>......>>...>>>>>>>>>>.>>....<..
<<.<.<<<<<<<<..<<.<<<.<.<<<<..<<<<<.<............>
.>>>>>..>>>>.>.>>>.>>..>>>>>>>>..>.>>...>.....<<<<
<<<<<....>>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

Jmol._Canvas2D (Jmol) "jmolApplet0"[x]

loadScript jsmol/j2s/core/corebio.z.js

JSmol exec jmolApplet1 start applet null

Jmol JavaScript applet jmolApplet1__742703242341429__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet1__742703242341429__)

vwrOptions:

{ "name":"jmolApplet1","applet":true,"documentBase":"https://zhanglab.comp.nus.edu.sg/BioLiP/pdb.cgi?bs=BS01&chain=SN&pdb=8a98","platform":"J.awtjs2d.Platform","fullName":"jmolApplet1__742703242341429__","codePath":"https://zhanglab.comp.nus.edu.sg/BioLiP/jsmol/j2s/","display":"jmolApplet1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"742703242341429","bgcolor":"#FFFFFF" }

setting document base to "https://zhanglab.comp.nus.edu.sg/BioLiP/pdb.cgi?bs=BS01&chain=SN&pdb=8a98"

(C) 2015 Jmol Development

Jmol Version: 14.32.79 2022-10-26 15:52

java.vendor: Java2Script (HTML5)

java.version: 2022-06-24 05:54:49 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet1 (signed)

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor #FFFFFF

backgroundColor = "#FFFFFF"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue MODELKITCallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SELECTCallback null

Jmol getValue SERVICECallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue SYNCCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet1__742703242341429__ ready

Jmol._Canvas2D (Jmol) "jmolApplet1"[x]

loadScript jsmol/j2s/core/package.js

loadScript jsmol/j2s/core/corejmol.z.js

loadScript jsmol/j2s/core/corescript.z.js

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__742703242341429__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__742703242341429__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://zhanglab.comp.nus.edu.sg/BioLiP/pdb.cgi?bs=BS01&chain=SN&pdb=8a98","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__742703242341429__","codePath":"https://zhanglab.comp.nus.edu.sg/BioLiP/jsmol/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"742703242341429","bgcolor":"#FFFFFF" }

setting document base to "https://zhanglab.comp.nus.edu.sg/BioLiP/pdb.cgi?bs=BS01&chain=SN&pdb=8a98"

(C) 2015 Jmol Development

Jmol Version: 14.32.79 2022-10-26 15:52

java.vendor: Java2Script (HTML5)

java.version: 2022-06-24 05:54:49 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet0 (signed)

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor #FFFFFF

backgroundColor = "#FFFFFF"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue MODELKITCallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SELECTCallback null

Jmol getValue SERVICECallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue SYNCCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__742703242341429__ ready

script 1 started

script 1 started

• PDB: 8a98 CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME : snoRNA MUTANT
• Resolution: 2.46 Å
• Binding residue (original residue number in PDB): M1 T3 Y4 V5 R10 R29 R54 S55 S58 Y66 Y71
• Binding residue (residue number reindexed from 1): M1 T3 Y4 V5 R10 R29 R54 S55 S58 Y66 Y71

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit

External links

• PDB: RCSB:8a98, PDBe:8a98, PDBj:8a98
• PDBsum: 8a98
• PubMed: 38722744
• UniProt: Q4Q1X7

Application loaded.