Structure of PDB 8qrk Chain 3 Binding Site BS01

Receptor Information

>8qrk Chain 3 (length=70) Species: 9606 (Homo sapiens)

KNVLKIRRRKMNHHKYRKLVKKTRFLRRKVQEGRLRRKQIKFEKDLRRIW
LKAGLKEAPEGWQTPKIYLR

Ligand information

>8qrk Chain A (length=955)

aauagguuugguccuagccuuucuauuagcucuuaguaagauuacacaug
caagcauccccguuccagugaguucacccucuaaaucaccacgaucaaaa
gggacaagcaucaagcacgcagcaaugcagcucaaaacgcuuagccuagc
cacacccccacgggaaacagcagugauuaaccuuuagcaauaaacgaaag
uuuaacuaagcuauacuaaccccaggguuggucaauuucgugccagccac
cgcggucacacgauuaacccaagucaauagaagccggcguaaagaguguu
uuagaucacccccuccccaauaaagcuaaaacucaccugaguuguaaaaa
acuccaguugacacaaaauagacuacgaaaguggcuuuaacauaucugaa
cacacaauagcuaagacccaaacugggauuagauaccccacuaugcuuag
cccuaaaccucaacaguuaaaucaacaaaacugcucgccagaacacuacg
agccacagcuuaaaacucaaaggaccuggcggugcuucauaucccucuag
aggagccuguucuguaaucgauaaaccccgaucaaccucaccaccucuug
cucagccuauauaccgccaucuucagcaaacccugaugaaggcuacaaag
uaagcgcaaguacccacguaaagacguuaggucaagguguagcccaugag
guggcaagaaaugggcuacauuuucuaccccagaaaacuacgauagcccu
uaugaaacuuaagggucgaagguggauuuagcaguaaacugagaguagag
ugcuuaguugaacagggcccugaagcgcguacacaccgcccgucacccuc
cucaaguauacuucaaaggacauuuaacuaaaaccccuacgcauuuauau
agaggagacaagucguaacaugguaaguguacuggaaagugcacuuggac
gaacc

...((((..<<<<<<.)))).<<<<<<.<...<<<<<<<<..<.<<<.<<
<..<......>......<<.......<<<<.<..<<.......>>.>..>
>>>..<<<<....<<...<<<....>>>..>>......>>>>.<<...>>
.>>.<<......>>.....>>>>>>>........<<<....<<<<....>
>>>..>>>..>>.>>>>>>.....<<<<<<<<.....(((.....((.>>
>)).......)))..>>>>>...>.>>>>>>....<<<((.....<<<<.
.<<<<...............<<<<<<......<<<.<<<.<<<......>
>>..>>>.>>>.............<<....>>.>>>>>>.....>>>>..
.>>>>....<<<<<<...<<...<<<<.<.....>.>>>>...>>>>>>>
>..........<.<<<<<......))..>>>>>.>.>>>.<<.......<
<<<....>>>>.....>>..>>>>>><<<<<.<<<<<<<...<<<.<<<<
<..<<<<<<<<<<.....<<........>>..........<<<<<<<...
....<<.<<<..<<<<<<.......<<..<<<<<.....>>>.......>
>..>>.....<<<....>>>.........>>>...>>>>>>>>....>>>
>>>>..>>.>>>>>>>>.....<<<<.....>>>>.....<....<<<<<
<<.......>>>>>>>....>.....>>>>>.....<<<<<<<.......
..>>>>>>>.....>>>...>>>>>>>>>>.>>....<..<<.<...<<<
<<<..<<<<<......<<<...<<<.....>>>..>>>.......>>>>>
.>>>>>>....>.>>...>.....<<<<<<<<<....>>>>>>>>>....
.....

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8qrk GTPBP8 plays a role in mitoribosome formation in human mitochondria.
• Resolution: 6.69 Å
• Binding residue (original residue number in PDB): K128 N129 I133 R136 K137 M138 N139 H140 H141 K142 Y143 R144 K145 V147 K148 R151 R155 R161 R164 K165 K171 R175 Y195 R197
• Binding residue (residue number reindexed from 1): K1 N2 I6 R9 K10 M11 N12 H13 H14 K15 Y16 R17 K18 V20 K21 R24 R28 R34 R37 K38 K44 R48 Y68 R70

Gene Ontology

Molecular Function

• GO:0005515 protein binding

Biological Process

• GO:0032543 mitochondrial translation
• GO:0045839 negative regulation of mitotic nuclear division
• GO:0045862 positive regulation of proteolysis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005759 mitochondrial matrix
• GO:0005763 mitochondrial small ribosomal subunit
• GO:0005840 ribosome
• GO:0043231 intracellular membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8qrk, PDBe:8qrk, PDBj:8qrk
• PDBsum: 8qrk
• PubMed: 38969660
• UniProt: Q9NWT8|AKIP_HUMAN Small ribosomal subunit protein mS38 (Gene Name=AURKAIP1)