Structure of PDB 4v6x Chain AE Binding Site BS01

Receptor Information

>4v6x Chain AE (length=263) Species: 9606 (Homo sapiens)

MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRN
RLKYALTGDEVKKICMQRFIKIDGKVRTDITYPAGFMDVISIDKTGENFR
LIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYP
DPLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRER
HPGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAE
ERDKRLAAKQSSG

Ligand information

>4v6x Chain B2 (length=1861)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgcuccucucccacuuggauaa
cugugguaauucuagagcuaauacaugccgacgggcgcugacccccuucg
cgggggggaugcgugcauuuaucagaucaaaaccaacccggucagccccu
cuccggccccggccggggggcgggcgccggcggcuuuggugacucuagau
aaccucgggccgaucgcacgccccccguggcggcgacgacccauucgaac
gucugcccuaucaacuuucgaugguagucgccgugccuaccauggugacc
acgggugacggggaaucaggguucgauuccggagagggagccugagaaac
ggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccacucccga
cccggggagguagugacgaaaaauaacaauacaggacucuuucgaggccc
uguaauuggaaugaguccacuuuaaauccuuuaacgaggauccauuggag
ggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguaua
uuaaaguugcugcaguuaaaaagcucguaguuggaucuugggagcgggcg
ggcgguccgcgagccaccgcccguccccgccccuugccucucggcgcccc
cucgaugcucuuagcugagugucccgcggggcccgaagcguuuacuuuga
aaaaauuagaguguucaaagcaggcccgagccgccuggauaccgcagcua
ggaauaauggaauaggaccgcgguucuauuuuguugguuuucggaacuga
ggccaugauuaagagggacggccgggggcauucguauugcgccgcuagag
gugaaauucuuggaccggcgcaagacggaccagagcgaaagcauuugcca
agaauguuuucauuaaucaagaacgaaagucggagguucgaagacgauca
gauaccgucguaguuccgaccauaaacgaugccgaccggcgaugcggcgg
cguuauucccaugacccgccgggcagcuuccgggaaaccaaagucuuugg
guuccggggggaguaugguugcaaagcugaaacuuaaaggaauugacgga
agggcaccaccaggaguggagccugcggcuuaauuugacucaacacggga
aaccucacccggcccggacacggacaggauugacagauugauagcucuuu
cucgauuccgugggugguggugcauggccguucuuaguugguggagcgau
uugucugguuaauuccgauaacgaacgagacucuggcaugcuaacuaguu
acgcgacccccgagcggucggcgucccccaacuucuuagagggacaagug
gcguucagccacccgagauugagcaauaacaggucugugaugcccuuaga
uguccggggcugcacgcgcgcuacacugacuggcucagcgugugccuacc
cuacgccggcaggcgcggguaacccguugaaccccauucgugauggggau
cggggauugcaauuauuccccaugaacgaggaauucccaguaagugcggg
ucauaagcuugcguugauuaagucccugcccuuuguacacaccgcccguc
gcuacuaccgauuggaugguuuagugaggcccucggaucggccccgccgg
ggucggcccacggcccuggcggagcgcugagaagacggucgaacuugacu
aucuagaggaaguaaaagucguaacaagguuuccguaggugaaccugcgg
aaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v6x Structures of the human and Drosophila 80S ribosome.
• Resolution: 5.0 Å
• Binding residue (original residue number in PDB): M1 A2 R3 K7 H8 K10 V12 M19 D21 K22 L23 V26 F27 P29 T33 G34 K37 L38 T57 G58 M66 R77 K106 R108 R127 V131 G132 K134 G135 A144 T146 R148 G186 A187 H201 A219 R221 I248 R255
• Binding residue (residue number reindexed from 1): M1 A2 R3 K7 H8 K10 V12 M19 D21 K22 L23 V26 F27 P29 T33 G34 K37 L38 T57 G58 M66 R77 K106 R108 R127 V131 G132 K134 G135 A144 T146 R148 G186 A187 H201 A219 R221 I248 R255

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:4v6x, PDBe:4v6x, PDBj:4v6x
• PDBsum: 4v6x
• PubMed: 23636399
• UniProt: P62701|RS4X_HUMAN Small ribosomal subunit protein eS4, X isoform (Gene Name=RPS4X)