Structure of PDB 6w6l Chain X Binding Site BS01

Receptor Information

>6w6l Chain X (length=61) Species: 9606 (Homo sapiens)

KVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINW
TVLYRRKHKKG

Ligand information

>6w6l Chain t (length=3510)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggggcgcgggacaugug
gcguacggaagacccgcuccccggcgccgcucguggggggcccaaguccu
ucugaucgaggcccagcccguggacggugugaggccgguagcggcccccg
gcgcgcgcccgggucuucccggagucggguugcuugggaaugcagcccaa
agcgggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauag
ucaacaaguaccguaagggaaaguugaaaagaacuuugaagagagaguuc
aagagggcgugaaaccguuaagagguaaacgggugggguccgcgcagucc
gcccggaggauucaacccggcggcggguccggccgugucggcggcccggc
ggaucuuucccgggcgggggaccgucccccggaccggcgaccggccgccg
ccgggcgcauuuccaggcggugcgccgcgaccggcuccgggacggcuggg
aaggcccggcggggaagguggcucggggcccccgaguguuacagcccccc
cggcagcagcacucgccgaaucccggggccgagggagagacccgucgccg
cgcucuccccccugggggggccgggccaccccucccacggcgcgaccgcu
cucccagggggcggggcggacuguccccagugcgccccgggcgggucgcg
ccgucgggcccggggggccacgcgcgcgucccccgaagggggggacggcg
gagagcgcacggggucggcggcgacgucggcuacccacccgacccgucuu
gaaacacggaccaaggagucuaacacgugcgcgagucgggggcucgcacg
aaagccgccguggcgcaaugaaggugaaggccggcgcgcucgccggccga
ggugggaucccgaggccucuccaguccgccgaggggcaccaccggcccgu
cucgcccgccgcgccggggagguggagcacgagcgcacguguuaggaccc
gaaagauggugaacuaugccugggcagggcgaagccagaggaaacucugg
uggagguccguagcgguccugacgugcaaaucggucguccgaccugggua
uaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccgaagu
uucccucaggauagcuggcgcucucgcccacgcaguuuuauccgguaaag
cgaaugauuagaggucuuggggccgaaacgaucucaaccuauucucaaac
uuuaaauggguaagaagcccggcucgcuggcguggagccgggguggaaug
cgagugccuagugggccacuuuugguaagcagaacuggcgcugcgggaug
aaccgaacgccggguuaaggcgcccgaugccgacgcucaucagaccccag
aaaagguguugguugauauagacugccgaaucaacuagcccugaaaaugg
auggcgcuggagcgucgggcccauacccggccgucgccggcgucgagagu
ggacgggagcggcggcccggagccccgcggacgcuacgccgcgacgagua
ggagggccgcugcggugagccuugaagccuagggcgcgggcccgggugga
gccgccgcaggugcagaucuuggugguaguagcaaauauucaaacgagaa
cuuugaaggccgaaguggagaaggguuccaugugaacagcaguugaacau
gggucagucgguccugagagaugggcgagcgccguuccgaagggacgggc
gauggccuccguugcccucggccgaucgaaagggagucggguucagaucc
ccgaauccggaguggcggagaugggcgccgcgaggcguccagugcgguaa
cgcgaccgaucccggagaagccggcgggagccccggggagaguucucuuu
ucuuugugaagggcagggcgcccuggaauggguucgccccgagagagggg
cccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucucg
cuggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccgu
acccauauccgcagcaggucuccaaggugaacagccucuggcauguugga
acaauguagguaagggaagucggcaagccggauccguaacuucgggauaa
ggauuggcucuaagggcuggcagccgacuuagaacuggugcggaccaggg
gaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgggu
guugacgcgaugugauuucugcccagugcucugaaugucaaagugaagaa
auucaaugaagcgcggguaaacggcgggaguaacuaugacucucuuaagg
uagccaaaugccucgucaucuaauuagugacgcgcaugaauggaugaacg
agauucccacugucccuaccuacuauccagcgaaaccacagccaagggaa
cgggcuuggcggaaucagcggggaaagaagacccuguugagcuugacucu
agucuggcacggugaagagacguuuuuucacugacccggugaggcggggg
ggcgagcccgaggggcucucgcuucuggcgccaagcgcccgcccggccgg
gcgcgacccgcuccggggacagugccagguggggaguuugacuggggcgg
uacaccugucaaacgguaacgcagguguccuaaggcgagcucagggagga
cagaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauuu
ucaguacgaauacagaccgugaaagcggggccucacgauccuucugaccu
uuuggguuuuaagcaggaggugucagaaaaguuaccacagggauaacugg
cuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucgaug
ucggcucuuccuaucauugugaagcagaauucgccaagcguuggauuguu
cacccacuaauagggaacgugagcuggguuuagaccgucgugagacaggu
uaguuuuacccuacugaugauguguuguugccaugguaauccugcucagu
acgagaggaaccgcagguucagacauuugguguaugugcuuggcugagga
gccaauggggcgaagcuaccaucugugggauuaugacugaacgccucuaa
gucagaaucccgcccaggcggaacgauacggcagcgccgcggagccucgg
uuggccucggauagccgguccccgccggggguccggugcggagugcccuu
cguccugggaaaccucgcccgucacgcaccgcacguucguggggaaccug
gcgcuaaaccauucguagacgaccugcuucugggucgggguuucguacgu
agcagagcagcucccucgcugcgaucuauugaaagucagcccucgacaca
aggguuuguc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6w6l An ER translocon for multi-pass membrane protein biogenesis.
• Resolution: 3.84 Å
• Binding residue (original residue number in PDB): R19 K35 R44 N50 W51 R56 K61
• Binding residue (residue number reindexed from 1): R18 K34 R43 N49 W50 R55 K60

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0045296 cadherin binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0010458 exit from mitosis
• GO:0021554 optic nerve development
• GO:0031290 retinal ganglion cell axon guidance
• GO:0060041 retina development in camera-type eye

Cellular Component

• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6w6l, PDBe:6w6l, PDBj:6w6l
• PDBsum: 6w6l
• PubMed: 32820719
• UniProt: P83731|RL24_HUMAN Large ribosomal subunit protein eL24 (Gene Name=RPL24)