Structure of PDB 5aj0 Chain BN Binding Site BS02

Receptor Information

>5aj0 Chain BN (length=149) Species: 9606 (Homo sapiens)

GRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIG
VILRDSHGVAQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKH
LERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALV

Ligand information

>5aj0 Chain B1 (length=1708)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgacuuggauaacugugguaauucua
gagcuaauacaugccgacgggcgcugacccccuucgcgggggggaugcgu
gcauuuaucagaucaaaaccaacccgggcuuuggugacucuagauaaccu
cgggccgaucgcacgccccccguggcggcgacgacccauucgaacgucug
cccuaucaacuuucgaugguagucgccgugccuaccauggugaccacggg
ugacggggaaucaggguucgauuccggagagggagccugagaaacggcua
ccacauccaaggaaggcagcaggcgcgcaaauuacccacucccgacccgg
ggagguagugacgaaaaauaacaauacaggacucuuucgaggcccuguaa
uuggaaugaguccacuuuaaauccuuuaacgaggauccauuggagggcaa
gucuggugccagcagccgcgguaauuccagcuccaauagcguauauuaaa
guugcugcaguuaaaaagcucguaguuggaucuugggagcggccccuugc
cucucgcccgaagcguuuacuuugaaaaaauuagaguguucaaagcaggc
ccgagccgccuggauaccgcagcuaggaauaauggaauaggaccgcgguu
cuauuuuguugguuuucggaacugaggccaugauuaagagggacggccgg
gggcauucguauugcgccgcuagaggugaaauucuuggaccggcgcaaga
cggaccagagcgaaagcauuugccaagaauguuuucauuaaucaagaacg
aaagucggagguucgaagacgaucagauaccgucguaguuccgaccauaa
acgaugccgaccggcgaugcggcggcguuauucccaugacccgccgggca
gcuuccgggaaaccaaagucuuuggguuccggggggaguaugguugcaaa
gcugaaacuuaaaggaauugacggaagggcaccaccaggaguggagccug
cggcuuaauuugacucaacacgggaaaccucacccggcccggacacggac
aggauugacagauugauagcucuuucucgauuccgugggugguggugcau
ggccguucuuaguugguggagcgauuugucugguuaauuccgauaacgaa
cgagacucuggcaugcuaacuaguuacgcgacccccgagcgguaacuucu
uagagggacaaguggcguucagccacccgagauugagcaauaacaggucu
gugaugcccuuagauguccggggcugcacgcgcgcuacacugacuggcuc
agcgugugccuacccuacgccggcaggcgcggguaacccguugaacccca
uucgugauggggaucggggauugcaauuauuccccaugaacgaggaauuc
ccaguaagugcgggucauaagcuugcguugauuaagucccugcccuuugu
acacaccgcccgucgcuacuaccgauuggaugguuuagugaggcccucgg
aucggccccgccguggcggagcgcugagaagacggucgaacuugacuauc
uagaggaaguaaaagucguaacaagguuuccguaggugaaccugcggaag
gaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5aj0 Structural Snapshots of Actively Translating Human Ribosomes
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): G2 R3 M4 H5 P7 G8 K9 G10 L11 S12 S14 L16 R20 S48 G51 R55 A61 Q62 R64 K70 I71 L72 R73 E86 D87 H90 L91 K94 H101 R104 N105 K107 D108 K109 D110 K112 F113 R114 I116 L117 S120 R124 R127 Y128 K132
• Binding residue (residue number reindexed from 1): G1 R2 M3 H4 P6 G7 K8 G9 L10 S11 S13 L15 R19 S47 G50 R54 A60 Q61 R63 K69 I70 L71 R72 E85 D86 H89 L90 K93 H100 R103 N104 K106 D107 K108 D109 K111 F112 R113 I115 L116 S119 R123 R126 Y127 K131

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0048027 mRNA 5'-UTR binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0033119 negative regulation of RNA splicing
• GO:0042274 ribosomal small subunit biogenesis

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:0014069 postsynaptic density
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5aj0, PDBe:5aj0, PDBj:5aj0
• PDBsum: 5aj0
• PubMed: 25957688
• UniProt: P62277|RS13_HUMAN Small ribosomal subunit protein uS15 (Gene Name=RPS13)