Structure of PDB 7qp7 Chain Y Binding Site BS01

Receptor Information

>7qp7 Chain Y (length=141) Species: 9606 (Homo sapiens)

PLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPV
LLLGKERFAGVDIRVRVKGGGHVAQIYAIRQSISKALVAYYQKYVDEASK
KEIKDILIQYDRTLLVADPRRCESKKFGGPGARARYQKSYR

Ligand information

>7qp7 Chain A (length=1719)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucugaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgcuccuacuuggauaacugug
guaauucuagagcuaauacaugccgacgggcgcugacccccuucgcgggg
gggaugcgugcauuuaucaguggugacucuagauaaccucgggccgaucg
cacgccccccguggcggcgacgacccauucgaacgucugcccuaucaacu
uucgaugguagucgccgugccuaccauggugaccacgggugacggggaau
caggguucgauuccggagagggagccugagaaacggcuaccacauccaag
gaaggcagcaggcgcgcaaauuacccacucccgacccggggagguaguga
cgaaaaauaacaauacaggacucuuucgaggcccuguaauuggaaugagu
ccacuuuaaauccuuuaacgaggauccauuggagggcaagucuggugcca
gcagccgcgguaauuccagcuccaauagcguauauuaaaguugcugcagu
uaaaaagcucguaguuggaucuugggagcggccccgccccucucggcggc
ccgaagcguuuacuuugaaaaaauuagaguguucaaagcaggcccgagcc
gccuggauaccgcagcuaggaauaauggaauaggaccgcgguucuauuuu
guugguuuucggaacugaggccaugauuaagagggacggccgggggcauu
cguauugcgccgcuagaggugaaauucuuggaccggcgcaagacggacca
gagcgaaagcauuugccaagaauguuuucauuaaucaagaacgaaagucg
gagguucgaagacgaucagauaccgucguaguuccgaccauaaacgaugc
cgaccggcgaugcggcggcguuauucccaugacccgccgggcagcuuccg
ggaaaccaaagucuuuggguuccggggggaguaugguugcaaagcugaaa
cuuaaaggaauugacggaagggcaccaccaggaguggagccugcggcuua
auuugacucaacacgggaaaccucacccggcccggacacggacaggauug
acagauugauagcucuuucucgauuccgugggugguggugcauggccguu
cuuaguugguggagcgauuugucugguuaauuccgauaacgaacgagacu
cuggcaugcuaacuaguuacgcgacccccgagcggucggcgucccccaac
uucuuagagggacaaguggcguucagccacccgagauugagcaauaacag
gucugugaugcccuuagauguccggggcugcacgcgcgcuacacugacug
gcucagcgugugccuacccuacgccggcaggcgcggguaacccguugaac
cccauucgugauggggaucggggauugcaauuauuccccaugaacgagga
auucccaguaagugcgggucauaagcuugcguugauuaagucccugcccu
uuguacacaccgcccgucgcuacuaccgauuggaugguuuagugaggccc
ucggaucggccccgccgggggcccuggcggagcgcugagaagacggucga
acuugacuaucuagaggaaguaaaagucguaacaagguuuccguagguga
accugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7qp7 Conformational rearrangements upon start codon recognition in human 48S translation initiation complex.
• Resolution: 3.7 Å
• Binding residue (original residue number in PDB): Q11 V12 F13 R15 K16 K17 T18 H24 K26 K33 E43 R45 R69 R71 K73 G74 G75 G76 H77 V78 A79 Q80 R125 R126 C127 E128 S129 K130 K131 F132 A137 R138 A139 R140 Y141 Q142 K143 S144 Y145 R146
• Binding residue (residue number reindexed from 1): Q6 V7 F8 R10 K11 K12 T13 H19 K21 K28 E38 R40 R64 R66 K68 G69 G70 G71 H72 V73 A74 Q75 R120 R121 C122 E123 S124 K125 K126 F127 A132 R133 A134 R135 Y136 Q137 K138 S139 Y140 R141

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis
• GO:1990830 cellular response to leukemia inhibitory factor

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:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7qp7, PDBe:7qp7, PDBj:7qp7
• PDBsum: 7qp7
• PubMed: 35489072
• UniProt: P62249|RS16_HUMAN Small ribosomal subunit protein uS9 (Gene Name=RPS16)