Structure of PDB 8oz0 Chain Y Binding Site BS01

Receptor Information

>8oz0 Chain Y (length=256) Species: 9606 (Homo sapiens)

ARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNR
LKYALTGDEVKKICMQRFIKIDGKVRTDITYPAGFMDVISIDKTGENFRL
IYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYPD
PLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERH
PGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAEE
RDKRLA

Ligand information

>8oz0 Chain W (length=1716)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucugaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgccuacuuggauaacuguggu
aauucuagagcuaauacaugccgacgggcgcugacccccuucgcgggggg
gaugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgca
cgccccccguggcggcgacgacccauucgaacgucugcccuaucaacuuu
cgaugguagucgccgugccuaccauggugaccacgggugacggggaauca
ggguucgauuccggagagggagccugagaaacggcuaccacauccaagga
aggcagcaggcgcgcaaauuacccacucccgacccggggagguagugacg
aaaaauaacaauacaggacucuuucgaggcccuguaauuggaaugagucc
acuuuaaauccuuuaacgaggauccauuggagggcaagucuggugccagc
agccgcgguaauuccagcuccaauagcguauauuaaaguugcugcaguua
aaaagcucguaguuggaucuugggagcggccccgccccucucggcggccc
gaagcguuuacuuugaaaaaauuagaguguucaaagcaggcccgagccgc
cuggauaccgcagcuaggaauaauggaauaggaccgcgguucuauuuugu
ugguuuucggaacugaggccaugauuaagagggacggccgggggcauucg
uauugcgccgcuagaggugaaauucuuggaccggcgcaagacggaccaga
gcgaaagcauuugccaagaauguuuucauuaaucaagaacgaaagucgga
gguucgaagacgaucagauaccgucguaguuccgaccauaaacgaugccg
accggcgaugcggcggcguuauucccaugacccgccgggcagcuuccggg
aaaccaaagucuuuggguuccggggggaguaugguugcaaagcugaaacu
uaaaggaauugacggaagggcaccaccaggaguggagccugcggcuuaau
uugacucaacacgggaaaccucacccggcccggacacggacaggauugac
agauugauagcucuuucucgauuccgugggugguggugcauggccguucu
uaguugguggagcgauuugucugguuaauuccgauaacgaacgagacucu
ggcaugcuaacuaguuacgcgacccccgagcggucggcgucccccaacuu
cuuaagggacaaguggcguucagccacccgagauugagcaauaacagguc
ugugaugcccuuagauguccggggcugcacgcgcgcuacacugacuggcu
cagcgugugccuacccuacgccggcaggcgcggguaacccguugaacccc
auucgugauggggaucggggauugcaauuauuccccaugaacgaggaauu
cccaguaagugcgggucauaagcuugcguugauuaagucccugcccuuug
uacacaccgcccgucgcuacuaccgauuggaugguuuagugaggcccucg
gaucggccccgccgggggcccuggcggagcgcugagaagacggucgaacu
ugacuaucuagaggaaguaaaagucguaacaagguuuccguaggugaacc
ugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8oz0 The structure of a human translation initiation complex reveals two independent roles for the helicase eIF4A.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): A2 R3 P5 K6 K7 H8 K10 V12 K16 M19 K22 F27 A28 P29 R30 T33 G34 K37 L38 R49 M66 K75 R77 K106 R108 K128 V131 K134 V140 A144 T146 E199 H201 A219
• Binding residue (residue number reindexed from 1): A1 R2 P4 K5 K6 H7 K9 V11 K15 M18 K21 F26 A27 P28 R29 T32 G33 K36 L37 R48 M65 K74 R76 K105 R107 K127 V130 K133 V139 A143 T145 E198 H200 A218

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0008284 positive regulation of cell population proliferation
• GO:0042274 ribosomal small subunit biogenesis
• GO:0045727 positive regulation of translation

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0015935 small ribosomal subunit
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0036464 cytoplasmic ribonucleoprotein granule
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8oz0, PDBe:8oz0, PDBj:8oz0
• PDBsum: 8oz0
• PubMed: 38287194
• UniProt: P62701|RS4X_HUMAN Small ribosomal subunit protein eS4, X isoform (Gene Name=RPS4X)