Structure of PDB 7qp7 Chain R Binding Site BS01

Receptor Information

>7qp7 Chain R (length=198) Species: 9606 (Homo sapiens)

GISRDNWHKRRKTGGKRKPYHKKRKYELGRPAANTKIGPRRIHTVRVRGG
NKKYRALRLDVGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNCI
VLIDSTPYRQWYESHYALPLGRKEEEILNKKRSKKIQKKYDERKKNAKIS
SLLEEQFQQGKLLACIASRPGQCGRADGYVLEGKELEFYLRKIKARKG

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): G2 R5 N7 H9 K10 R11 R12 T14 R18 K19 Y21 K23 K24 R25 K26 Y27 L29 G30 R31 P32 A33 A34 R41 R42 H44 R47 V48 R49 G50 N52 K54 Y55 R56 L58 N64 S66 C71 C72 T73 R74 K75 S86 N87 V97 K98 N99 K143 K147 R178 Q181 C182 G183 R184 D186
• Binding residue (residue number reindexed from 1): G1 R4 N6 H8 K9 R10 R11 T13 R17 K18 Y20 K22 K23 R24 K25 Y26 L28 G29 R30 P31 A32 A33 R40 R41 H43 R46 V47 R48 G49 N51 K53 Y54 R55 L57 N63 S65 C70 C71 T72 R73 K74 S85 N86 V96 K97 N98 K134 K138 R169 Q172 C173 G174 R175 D177

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:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• 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:7qp7, PDBe:7qp7, PDBj:7qp7
• PDBsum: 7qp7
• PubMed: 35489072
• UniProt: P62241|RS8_HUMAN Small ribosomal subunit protein eS8 (Gene Name=RPS8)