Structure of PDB 4v6x Chain AX Binding Site BS01

Receptor Information

>4v6x Chain AX (length=142) Species: 9606 (Homo sapiens)

MGKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGI
VLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEV
LVAGFGRKGHAVGDIPGVRFKVVKVANVSLLALYKGKKERPR

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 K3 C4 R5 R8 T9 R11 K12 R17 R18 Q20 K21 W22 H23 D24 K28 L36 G43 A44 S45 H46 A47 K48 E58 K60 N63 S64 K68 I75 K76 N87 D88 G104 G106 R107 G113 D114 R119 Y134 K137 K138
• Binding residue (residue number reindexed from 1): M1 K3 C4 R5 R8 T9 R11 K12 R17 R18 Q20 K21 W22 H23 D24 K28 L36 G43 A44 S45 H46 A47 K48 E58 K60 N63 S64 K68 I75 K76 N87 D88 G104 G106 R107 G113 D114 R119 Y134 K137 K138

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
• GO:0034063 stress granule assembly
• GO:0042274 ribosomal small subunit biogenesis
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005791 rough endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v6x, PDBe:4v6x, PDBj:4v6x
• PDBsum: 4v6x
• PubMed: 23636399
• UniProt: P62266|RS23_HUMAN Small ribosomal subunit protein uS12 (Gene Name=RPS23)