Structure of PDB 8q5i Chain y Binding Site BS01

Receptor Information

>8q5i Chain y (length=185) Species: 5476 (Candida albicans)

GRDHTSKQHVRSGHRTAPKSDNVYLQLLVKLYSFLARRTDAPFNKVILKS
LFLSKINRPPVSVSRISRALKQKGAAEKTIVVVGTVTDDNRLLEFPKATI
AALRFTAGAKDRILKNGGEAITLDQLALRAPKGQNTLIVRGPRNSREAVR
HFGFGPHKGKAPRILSKGRKFERARGRRRSRGFKV

Ligand information

>8q5i Chain 1 (length=3073)

ugaccucaaaucagguaggacuacccgcugaacuuaagcauaucaauaag
cggaggaaaagaaaccaacagggauugccucaguagcggcgagugaagcg
gcaaaagcucaaauuugaaaucuggcgucuuuggcguccgaguuguaauu
ugaagaagguaucuuugggcccggcucuugucuauguuccuuggaacagg
acgucacagagggugagaaucccgugcgaugagaugacccgggucugugu
aaaguuccuucgacgagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcuugagaucagacuugguaccgggcc
agcaucgguuuggagcggcaggauaauggcggaggaauguggcacggcuu
cugcuguguguuauagccucugacgauacugccagccuagaccgaggacu
gcgguuuuuaccuaggauguuggcauaaugaucuuaagucgcccgucuug
aaacacggaccaaggagucuaacgucuaugcgaguguuuggguguaaaac
ccguacgcguaaugaaagugaacgaaggugggggcccauuagggugcacc
aucgaccgauccugauguguucggauggauuugaguaagagcauagcugu
ugggacccgaaagauggugaacuaugccugaauagggugaagccagagga
aacucugguggaggcucguagcgguucugacgugcaaaucgaucgucgaa
uuuggguauaggggcgaaagacuaaucgaaccaucuaguagcugguuccu
gccgaaguuucccucaggauagcagaagcucguaucaguuuuaugaggua
aagcgaaugauuagaagucuugggcuuaacuuauucucaaacuuuaaaua
uguaagaaguccuuguugcuuaauugaacguggacaauugaaugaagagc
uuuuagugggccauuuuugguaagcagaacuggcgaugcgggaugaaccg
aacgugaaguuaaagugccggaaugcacgcucaucagacaccacaaaagg
uguuaguucaucuagacagccggccgaaugaacuagcccugaaaauggau
ggcgcucaagcgugcuacuuauacuucaccgugauugcuguuuugacgcu
uucacgaguaggcaggcguggaggucagugacgaagccuuugcuguaaag
cugggucgaacggccucuagugcagaucuuggugguaguagcaaauauuc
aaaugagaacuuugaagacugaaguggggaaagguuccaugucaacagca
guuggacauggguuagucgauccuaagagauggggaagcuccguuucaac
gugcuugauuuuucaggccaaccaucgaaagggaauccgguuaaaauucc
ggaacuuggauauggauucuucacggcaacguaacugaauguggagacgu
cggcgugagcccugggaggaguuaucuuuucuucuuaacagcuuaucacc
cuggaauugguuuauccggagauggggucuuauggcuggaagagcgcggu
aauuuugccgcguccggugcgcuuacgacgguccuugaaaauccacagga
aggaauaguuuucaugccaagucguacucauaaccgcagcaggucuccaa
gguuaacagccucuaguugauagaauaauguagauaagggaagucggcaa
aauagauccguaacuucgggauaaggauuggcucuaaggaucggaacgau
caacuuagaacugguacggacaaggggaaucugacugucuaauuaaaaca
uagcauugugauggucagaaagugauguugacacaaugugauuucugccc
agugcucugaaugucaaagugaagaaauucaaccaagcgcggguaaacgg
cgggaguaacuaugacucucuuaagguagccaaaugccucgucaucuaau
uagugacgcgcaugaauggauuaacgagauucccacugucccuaucuacu
aucuagcgaaaccacagccaagggaacgggcuuggcagaaucagcgggga
aagaagacccuguugagcuugacucuaguuugacauugugaaaaguuuuu
acuuauucaaugaagcggagcuggaggucaaacuccacguucuagcauua
agcccucugggcgauccggguugaagacauugucagguggggaguuuggc
uggggcggcacaucuguuaaacgauaacgcagguguccuaagggggacuc
auggagaacagaaaucuccaguagaacaaaaggguaaaaguccccuugau
uuugauuuucagugugaauacaaaccaugaaaguguggccuaucgauccu
uuagucccucggaauuugaggcuagaggugccagaaaaguuaccacaggg
auaacuggcuuguggcagucaagcguucauagcgacauugcuuuuugauu
cuucgaugucggcucuuccuaucauaccgaagcagaauucgguaagcguu
ggauuguucacccacuaauagggaacgugagcuggguuuagaccgucgug
agacagguuaguuuuacccuacugaugaauguuaucgcaauaguaauuga
acuuaguacgagaggaaccguucauucagauaauugguuuuugcggcugu
cugaucaggcaacgccgcgaagcuaccaucugcuggauuauggcugaacg
ccucuaagucagaauccaugcuagaacgcgaugauuuuugcccugcacau
uuuagauggauacgaauaagacuuuuuagucgcuggaccauagcaggcug
gcaacggugcgcuuagcggaaaggcuuugugcgcuugccggcggauagca
augucaacaugcgcggggauaaauccuuugcauacgacuuagauguacaa
cggaguauuguaagcaguagaguagccuuguuguuacgaucugcugagau
uaagcucuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8q5i Structural characterization of cephaeline binding to the eukaryotic ribosome using Cryo-Electron Microscopy
• Resolution: 2.45 Å
• Binding residue (original residue number in PDB): G2 R3 H5 S7 K8 Q9 H10 V11 R12 S13 G14 H15 R16 K20 S21 Q27 F35 R38 R39 P43 F44 L54 S55 K56 I57 N58 S63 S65 R66 R69 Q73 K79 T86 T88 D89 D90 N91 R92 T107 A108 Q135 N136 T137 I139 R141 R144 N145 S146 R147 E148 R151 F153 G154 P157 G160 K161 A162 P163 R164 S167 K168 R170 K171 F172 R176 R178 R179 R180 S181 R182 F184 K185 V186
• Binding residue (residue number reindexed from 1): G1 R2 H4 S6 K7 Q8 H9 V10 R11 S12 G13 H14 R15 K19 S20 Q26 F34 R37 R38 P42 F43 L53 S54 K55 I56 N57 S62 S64 R65 R68 Q72 K78 T85 T87 D88 D89 N90 R91 T106 A107 Q134 N135 T136 I138 R140 R143 N144 S145 R146 E147 R150 F152 G153 P156 G159 K160 A161 P162 R163 S166 K167 R169 K170 F171 R175 R177 R178 R179 S180 R181 F183 K184 V185

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8q5i, PDBe:8q5i, PDBj:8q5i
• PDBsum: 8q5i
• UniProt: A0A8H6C4Y1