Structure of PDB 6w6l Chain T Binding Site BS02

Receptor Information

>6w6l Chain T (length=175) Species: 9606 (Homo sapiens)

MKASGTLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSRFWYFVSQ
LKKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDL
TTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFHDSKI
KFPLPHRVLRRQHKPRFTTKRPNTF

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): K2 A3 S4 G5 F68 K70 S86 R87 H91 M93 R95 R98 R111 G114 A115 R116 H117 R118 R139 H146 D147 S148 H156 L159 Q162 H163 R166 T168 K170 R171 P172 N173 T174 F175
• Binding residue (residue number reindexed from 1): K2 A3 S4 G5 F68 K70 S86 R87 H91 M93 R95 R98 R111 G114 A115 R116 H117 R118 R139 H146 D147 S148 H156 L159 Q162 H163 R166 T168 K170 R171 P172 N173 T174 F175

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6w6l, PDBe:6w6l, PDBj:6w6l
• PDBsum: 6w6l
• PubMed: 32820719
• UniProt: Q02543|RL18A_HUMAN Large ribosomal subunit protein eL20 (Gene Name=RPL18A)