Structure of PDB 4v6w Chain Cl Binding Site BS01

Receptor Information
>4v6w Chain Cl (length=50) Species: 7227 (Drosophila melanogaster) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AAHKSFRIKQKLAKKLKQNRSVPQWVRLRTGNTIRYNAKRRHWRRTKLKL
Ligand information
>4v6w Chain A5 (length=3806) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuauauacaaccucaacucauaugggacuacccccugaauuuaagcauau
uaauuaggggaggaaaagaaacuaacaaggauuuucuuaguagcggcgag
cgaaaagaaaacaguucagcacuaagucacuuugucuauauggcaaaugu
gagaugcaguguauggagcgucaauauucuaguaugagaaauuaacgauu
uaaguccuucuuaaaugaggccauuuacccauagagggugccaggcccgu
auaacguuaaugauuacuagaugauguuuccaaagagucguguugcuuga
uagugcagcacuaagugggugguaaacuccaucuaaaacuaaauauaacc
augagaccgauaguaaacaaguaccgugagggaaaguugaaaagaacucu
gaauagagaguuaaacaguacgugaaacugcuuagagguuaagcccgaug
aaccugaauauccguuauggaaaauucaucauuaaaauuguaauauuuaa
auaauauuaugagaauagugugcauuuuuuccauauaaggacauuguaau
cuauuagcauauaccaaauuuaucauaaaauauaacuuauaguuuauucc
aauuaaauugcuugcauuuuaacacagaauaaauguuauuaauuugauaa
agugcugauagauuuauaugauuacagugcguuaauuuuucggaauuaua
uaauggcauaauuaucauugauuuuuguguuuauuauaugcacuuguaug
auuaacaaugcgaaagauucaggauaccuucgggacccgucuugaaacac
ggaccaaggagucuaacauaugugcaaguuauugggauauaaaccuaaua
gcguaauuaacuugacuaauaaugggauuaguuuuuuagcuauuuauagc
uaauuaacacaaucccggggcguucuauauaguuauguauaauguauauu
uauauuauuuaugccucuaacuggaacguaccuugagcauauaugcugug
acccgaaagauggugaacuauacuugaucagguugaagucaggggaaacc
cugauggaagaccgaaacaguucugacgugcaaaucgauugucagaauug
aguauaggggcgaaagaccaaucgaaccaucuaguagcugguuccuuccg
aaguuucccucaggauagcuggugcauuuuaauauuauauaaaauaaucu
uaucugguaaagcgaaugauuagaggccuuagggucgaaacgaucuuaac
cuauucucaaacuuuaaauggguaagaaccuuaacuuucuugauaugaag
aucaagguuaugauauaaaugucccagugggccacuuuugguaagcagaa
cuggcgcugugggaugaaccaaacguaauguuacgugcccaaauuaacaa
cucaugcagauaccaugaaaggcguugguugcuuaaaacagcaggacggu
gaucauggaagucgaaauccgcuaaggaguguguaacaacucaccugccg
aagcaacuagcccuuaaaauggauggcgcuuaaguuguauaccuauacau
uaccgcuaaaguagaugauuuauauuacuugugauauaaauuuugaaacu
uuagugaguaggaagguacaaugguaugcguagaaguguuuggcguaagc
cugcauggagcugccauugguacagaucuugguggauaguagcaaauaau
cgaaugagagccuuggaggacugaaguggagaaggguuucgugugaacag
ugguugaucacgaguuagucgguccuaaguucaaggcgaaagcgaaaauu
uucaaguaaaacauaauuuugaacgaaagggaauacgguuccaauuccgu
aaccuguugaguauccguuuguuauuaaauaugggccucgugcucauccu
ggcaacaggaacgaccauaaagaagccgucgagagauaucggaagaguuu
ucuuuucuguuuuauagccguacuaccauggaagucuuucgcagagagau
augguagaugggcuagaagagcaugacauauacuguugugucgauauuuu
cuccucggaccuugaaaauuuaugguggggacacgcaaacuucucaacag
gccguaccaauauccgcagcuggucuccaaggugaagagucucuagucga
uagaauaauguagguaagggaagucggcaaauuagauccguaacuucggg
auaaggauuggcucugaagauugagauagucggccuugauugggaaacaa
uauuguggaacuuucuugcuaaaauuuuuaauuauuaauuauaacgauua
ucaauuaacaaucaauucagaacuggcacggacuuggggaauccgacugu
cuaauuaaaacaaagcauugugauggcccuagcggguguugacacaaugu
gauuucugcccagugcucugaaugucaaagugaagaaauucaaguaagcg
cgggucaacggcgggaguaacuaugacucucuuaagguagccaaaugccu
cgucaucuaauuagugacgcgcaugaauggauuaacgagauuccuacugu
cccuaucuacuaucuagcgaaaccacagccaagggaacgggcuuggaaua
auuagcggggaaagaagacccuuuugagcuugacucuaaucuggcagugu
aaggagacauaagagguguagaauaagugggagauauuagaccucgguuu
gguaucgucaaugaaauaccacuacucuuauuguuuccuuacuuacuuga
uuaaauggaacguguaucauuuccuagccauuauacggauauauuuauua
uaucuuaugguauuggguuuugaugcaagcuucuugaucaaaguaucacg
aguuuguuauauaaucgcaaacaaauucuuuaauaaaacgaugcauuuau
guauuuuugauuugaaaauuugguauaacuccaauuacucagguaugauc
caauucaaggacauugccagguagggaguuugacuggggcgguacaucuc
ucaaauaauaacggaggugucccaaggccagcucagugcggacagaaacc
acacauagagcaaaagggcaaaugcugacuugaucucgguguucaguaca
cacagggacagcaaaagcucggccuaucgauccuuuugguuuaaagaguu
uuuaacaagaggugucagaaaaguuaccauagggauaacuggcuuguggc
ggccaagcguucauagcgacgucgcuuuuugauccuucgaugucggcucu
uccuaucauugugaagcaaaauucaccaagcguuggauuguucacccaug
caagggaacgugagcuggguuuagaccgucgugagacagguuaguuuuac
ccuacuaaugacaaaacguuguugcgacagcauuccugcguaguacgaga
ggaacccgcagguacggaccaauggcacaauacuuguucgagcgaacagu
gguaugacgcuacguccguuggauuaugccugaacgccucuaaggucgua
uccgugcuggacugcaaugauaaauaaggggcaauuugcauuguauggcu
ucuaaaccauuuaaaguuuauaauuuacuuuauaaacgacaauggaugug
augccaauguaauuuguaacauaguaaauugggaggaucuucgaucaccu
gaugccgcgcuaguuacauauaaaagcauuauuuaauacaaugacaaagc
cuagaaucaauuguaaacgacuuuuguaacaggcaagguguuguaagugg
uugagcagcugccauacugcgauccacugaagcuuauccuuugcuugaug
auucga
..............................<<<<<<.....<......>.
.....>>>>>.>.........<<....>>..<<<<<<.....<<.....>
>....>>>>>>..[[[..........<<<<<<<<<<.....>>>>>>.>>
>>.............<.<.<<......<<<<<<<......<<<<<<<.<.
.....<<<<.......>>>>.......((......<<<.....))>>>..
..>.>>>>>>>...>>>>>>>....>>.>.>........<<<<<<<....
....>>>>>>>.....(((((..<<<<<<)))))..]]]...........
.......................<<....>>...............<<<<
....>>>>...................................<<<<<.<
..<<<<<........<<<<<<<<<.....<<<<<...<<<<<<<<<<...
..>>>>>>>>>>...>>>>>......>>>>>>>>>......<<<<<<..<
<<<<<<<<<<.<<.<<<....<<.<<<...<<<.....<.<<<.<....<
<<<...>>>>...>.>>>.>........>>>..>>>.>>....>>>.>>.
>.>>>>>>>>>>..........<<<<<<<<..<<<<<<....>>>>>><<
<<<<<<<<<<<..<<<...>>>..>>>>>.>>>>>>>>.>>>>>.>>>..
....>>>>>>........>>>>>....>.>>>>>..<<<<........>>
>><<<<<<.....<<.<<<<<<<<<..<<<...<<<.......>>>...>
>>...<......>.........<<<<<<<.<<<..<<<<<<<<..>>>>>
>>>..>>>..>>>>>>><<<<<<<<....<<<<<<.<<<<<<<..<<<..
..>>>.>.>>>>>>...>>>>>>>>>>>>.>>....>>>>>>>>>.>>..
.<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>
>>>>>.....>>>...<<<..<<.<<........>>>>.>>>....>>>>
>>>>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<.
...<.<<<....>>>.><<.<<<<..<.................<<.<.<
<<<<<....<<<....<<...<.<<<....<<<<<<.....>>>>>>..>
>>.>...>>..>>.>....>>>>>>...<.<.<.<<<..<......>>>>
.>.>.>.....>.>>.>..>>>>...>>..<<<<.<<<<<.....>>>>>
.>>>>....<<<......>>>...<<<<<<<...<<(((.......<<<<
<.......<.......<..<<<.<<<<<<<<<........<<<<<.<<..
..<<.........>>....>>.........<<......>>...>>>>>..
..>>>>>>>>>>>>>.........))).>....>>>>>..>>....>>>>
>>>.<<<<<<<<....<<<<<<<<<<<<..>>>>>>>>>>>>.....>>>
>>>>>.....>>>>>><.<<<<<<<..<<......<<<<..<<<....>>
>.>>>>...>>.>>>>>>>..>.....>>>>>><<......<<......<
<.<<........>>.>>.<<<<.....<<<<<.<<...<<<<<....<<.
....>>..>>>>>....((<<<<<<...<<<<<..<<....>>.......
......<.......>....>>>>>....>>...<<<<<........>>>>
>))<<<<<<<<......<<.<....>>>....<..<.....>.>....<<
<....>>>.....<<<<<<<<....<<<..<<<<<<<.<.<<.<<<<..{
{{..>>>>.><...<<<<<...<<<<<<<<....<<<.....>>>....>
>>>>>>>...>>>>>.....><<<<<<<.....>>>>>>>>.>..>>>.>
>>>..>>>..........>>>>>>>>................>>>>>>>>
>>>>..>>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..
<<<<.....<<<<<<<.<<.........<.....<<<<<.....<..>..
....>>>>><<.<<<<<<<<<<..<<<<<<<<.....<<..<....<<<<
<>>>>>....>.>>.....<<.<<<<..<<<>>>..>>>>.>>.>>>>>>
>>.......>>>>..>>>>>>.>>............<<<<<<<<<..<<<
.........>>>..<<<<<<<....<<<<....>>>>......>>>>>>>
...<<..<<<..<<<<<<.....<<.....<<<<....>>>>.....>>.
.>>>>..>>>>><<<<<<.......>>>>>>........<..........
.<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..>..
>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>>>....
[[[[[..{{{.........{{{..{{[[[[..<<<<<.<<<<<<<<<.<<
<<<<<<<<<<<<<<<..........<<<<....<<<<<<<<<....>>>>
>>>>>..............>>>>.>>>>>>>.>>>>>>>>>>...<<<<<
.....<<<<...<<<<<<<...<<<<<..<<<<<<.<<<<<<<.....>>
>>>>>>>>>>>.>>>>>...>>>>>>>...............<<<<...<
<<<..<<..............<<<<<<.<<<<<...<<.<<<<<<....>
>>>>>.>>...>>>>>>>>>>>..........>.>.>>>>..>>>>..>>
>>..>>>>>....>>>>>>>>>..>>>>>...<<<.....>>>..<<<<<
<...........>>>>>>..<<...<<.<<<<...<<<.<<.......>>
.>>>.....<<...(((>>....>>>>.>>...<<<<.<<<<.......>
>>>.>>>>.<<<....>>>.>>))).......((((((..((((.>>>>>
>))))))))))..........]]]]..}}.}}}.......<<.<.<.<<<
<<<...<<.......>>...>>>>>>...>>.>.>.......<<<<<.<<
<<<<..<.<.<<<<<......>>>>>...>.>.<<<.<.....>.>>>..
...>>>>>.>...>>>.>>....<<<<<<<....>>>.>>>>........
}}}.]]]]]........<<<<<<<<..<<<<.<.<<<<<<..........
......>>>>>>.><<<<<...<<<<...<<<<<<<<<.}}}..>>>>..
>>>>>...>>>>.>>>>>.<<<<....<<<<...........>>>>....
>>>>.>>>>....>>>>>>>>.......<<<...<<<.<<<<<<......
...............<<<<<<<<......>>>>>>>>.............
..............<<<<<<.<<....<<<<<<.<<........>>.>>>
>>>.......>>>>>>>>...................>>>>>>...>>>>
>>.<<<<<.....................<<<<<<<<<.<<<....<<<<
....<<<<........>>>>...>>>>...>>>....>>>>.>>>>>..>
>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4v6w Structures of the human and Drosophila 80S ribosome.
Resolution6.0 Å
Binding residue
(original residue number in PDB)
A2 A3 H4 K5 F7 K10 L13 L17 S22 T34 R36 Y37 N38 K40 R41 H43 W44 R45 R46 T47 K48 K50 L51
Binding residue
(residue number reindexed from 1)
A1 A2 H3 K4 F6 K9 L12 L16 S21 T33 R35 Y36 N37 K39 R40 H42 W43 R44 R45 T46 K47 K49 L50
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:4v6w, PDBe:4v6w, PDBj:4v6w
PDBsum4v6w
PubMed23636399
UniProtO16130|RL39_DROME Large ribosomal subunit protein eL39 (Gene Name=RpL39)

[Back to BioLiP]