Structure of PDB 7a09 Chain U Binding Site BS01

Receptor Information

>7a09 Chain U (length=57) Species: 9606 (Homo sapiens)

PKKNKHKRKKVKLAVLKYYKVISRLRRECPSDECGAGVFMASHFDRHYCG
KCCLTYC

Ligand information

>7a09 Chain 2 (length=1721)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccgcggcgacgacccauucgaacgucugcccuaucaacuuucgaugguag
ucgccgugccuaccauggugaccacgggugacggggaaucaggguucgau
uccggagagggagccugagaaacggcuaccacauccaaggaaggcagcag
gcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaac
aauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaau
ccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcggu
aauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcucg
uaguuggaucuugggagcgggcgggcgguccgccgcgaggcgagccaccg
cccguccccgcccucucggccgaagcguuuacuuugaaaaaauuagagug
uucaaagcaggccgccuggauaccgcagcuaggaauaauggaauaggacc
gcgguucuauuuuguugguuuucggaacugaggccaugauuaagagggac
ggccgggggcauucguauugcgccgcuagaggugaaauucuuggaccggc
gcaagacggaccagagcgaaagcauuugccaagaauguuuucauuaauca
agaacgaaagucggagguucgaagacgaucagauaccgucguaguuccga
ccauaaacgaugccgaccggcgaugcggcggcguuauucccaugacccgc
cgggcagcuuccgggaaaccaaagucuuuggguuccggggggaguauggu
ugcaaagcugaaacuuaaaggaauugacggaagggcaccaccaggagugg
agccugcggcuuaauuugacucaacacgggaaaccucacccggcccggac
acggacaggauugacagauugauagcucuuucucgauuccguggguggug
gugcauggccguucuuaguugguggagcgauuugucugguuaauuccgau
aacgaacgagacucuggcaugcuaacuaguuacgcgaccggucggcguaa
cuucuuagagggacaaguggcguucagccacccgagauugagcaauaaca
ggucugugaugcccuuagauguccggggcugcacgcgcgcuacacugacu
ggcucagcgugugccuacccuacgccggcaggcgcggguaacccguugaa
ccccauucgugauggggaucggggauugcaauuauuccccaugaacgagg
aauucccaguaagugcgggucauaagcuugcguugauuaagucccugccc
uuuguacacaccgcccgucgcuacuaccgauuggaugguuuagugaggcc
cucggaucggccccgccggggugcccuggcggagcgcugagaagacgguc
gaacuugacuaucuagaggaaguaaaagucguaacaagguuuccguaggu
aaaccugcggaaggaucauua

...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<<.........<<.....<<.<<<...
..>>>.>>......>>.........<<<<...<<<<<.....>.>>>>..
.>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<
<.>>>>>>>.>>.>>>...>>..>.>>>.<<<....<<<....<<<<<<<
.........>>>>>>>>>>......>>>...<<<.<<<<....>>>>...
.>>>.>>.<<.<<<..........>>>.>>...<<....>>.....>>>>
>>.........<<<....<<<.....>>>..>>>..>...>>.>.....<
<<<<<<<<.<........>..>>>>>>.>>>......<<..<........
...>..>>.........<<<<<((......<<<<.....<<..))>>...
....>>>>.>>>>>..>>>>>>.>>>.........<.<((.....<.<<.
..<<<.<<.....<<.<.<<<<<<<<<<<.<<<<....>>>>....>>>>
>>>>>>>>..>>...<......>.....<<<<<<.<.......<<...<.
......>.<<<<.>>>>...>>......>.>>>..>>>........<.<<
.<<<<<..................>.>>>>.>>.>....>>....<<<<<
<..<...<<<<..<<..<<<<<<<<...<<<......>>>......>>>>
>>>>..>>.......<<....>>...>>>>..>..>>>.>>>...>>>..
.>>.>....<<<<<<<...<...<<<<.........>>>>...>>>>>>>
>..........<<<.<<.<<<..<.<<<<<<.<<<<<....>>>>>>>>>
>>.>..>>>...<<..))>>...>>.....>>>.>.>.<<<......<<<
<....>>>>....>>>..)))).]<<<<<.<<<<<<<..<<..<<<<<..
<<<.<<<<<<......<<........>>..........<<<<<.<....<
<<<<<.......<<.<<<........>>>.>>.....>>>>>>...<<.<
<<..<<.<<<<<<....<<<.<<<<<....>>>...<<<......>>>..
.>>.>>>....<<<...<...<<<<..<<<<.<<<<<<..>>>.>>>.>>
>>..>>>>..>.....<<<<<.....>>>>>........>>>....>>>.
>>>.....>>>>>>>.....>.>>>>>...>>.>>>>.>>>.....<<.<
<<........<.......<<<.<<<<....>>>>.>>>....>.......
..>>>.>>......<...<.<<<<<..........>>>>>>....>....
.>>>>>.....<<<<<<<<.......>>>>>>>>......>>...>>>>>
>>>>>.>>.......<<.<..<<<<.<<....<<<<<<<<.<<<..<<<<
.<<...<<<<<.<.................>....>>>>>...>>.>>>>
..>>>.>>>>>>>>...>>.>>>>...>.>>.........<<<<<<<<<.
...>>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7a09 A structural inventory of native ribosomal ABCE1-43S pre-initiation complexes.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): P88 K89 K90 H93 R95 K97 K99 L100 Y105 R118 F131 M132 A133 S134 H135 R138 Y140 G142 K143 C145
• Binding residue (residue number reindexed from 1): P1 K2 K3 H6 R8 K10 K12 L13 Y18 R26 F39 M40 A41 S42 H43 R46 Y48 G50 K51 C53

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0031386 protein tag activity
• GO:0031625 ubiquitin protein ligase binding
• GO:0046872 metal ion binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0016567 protein ubiquitination
• GO:0019941 modification-dependent protein catabolic process

Cellular Component

• GO:0005615 extracellular space
• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005741 mitochondrial outer membrane
• GO:0005789 endoplasmic reticulum membrane
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005886 plasma membrane
• GO:0010008 endosome membrane
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030666 endocytic vesicle membrane
• GO:0031982 vesicle
• GO:0032040 small-subunit processome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7a09, PDBe:7a09, PDBj:7a09
• PDBsum: 7a09
• PubMed: 33289941
• UniProt: P62979|RS27A_HUMAN Ubiquitin-ribosomal protein eS31 fusion protein (Gene Name=RPS27A)