Structure of PDB 7pd3 Chain j Binding Site BS01

Receptor Information

>7pd3 Chain j (length=85) Species: 9606 (Homo sapiens)

GGQWRLQQGLAANPSGYGPLTELPDWSYADGRPAPPMKGQLRRKAERETF
ARRVVLLSQEMDAGLQAWQLRQQKLQEEQRKQENA

Ligand information

>7pd3 Chain A (length=1280)

gcuaaaccuagccccaaacccccaccuuacuaccagacaaccuuagccaa
accauuuacauaaaguauaggcgauagaaauugggcgcaauagauauagu
accgcaagggaaagaugaaaaaaccaagcauaauauagcaaggacuaacc
ccuauaccuucugcauaaugaauuaacuagaaauaacuuugcaaggagag
ccaaagcuaagacccccgaaaccagacgagcuaccuaagaacagcuaaaa
gagcacacccgucuauguagcaaaauagugggaagauuuauagguagagg
cgacaaaccuaccgagccuggugauagcugguuguccaagauagaaucuu
aguucaacuuuaaauuugcccacagaaccaaauccccuuguaaauuuaac
uguuaguccaaagaggaacagcucuuuggacacuaggaaaaaaccuugua
gagagaguaaaaaauuuaacacccauaguaggccuaaaagcagccaccaa
uuaagaaagcguucaagcucaacacaaaaaucccaaacauauaacugaac
uccucacacccaauuggaccaaucuaucacccuauagaagaacuaauguu
aguauaaguaacaugaaaacauucuccuccgcauaagccugcgucagcaa
cugacaauuaacagcccaauaucuacaaucaaccaacaagucauuauuac
ccucacugucaacccaacacaggcaugcucauaaggaaagguuaaaaaaa
guaaaaggaacucggcaaaucuuaccccgccuguuuaccaaaaacaucac
cucuagcaucaccaguauuagaggcaccgccugcccagugacacauguuu
aacggccgcgguacccuaaccgugcaaagguagcauaaucacuuguuccu
uaaauagggaccuguaugaauggcaccacgaggguucagcugucucuuac
uuuuaaccagugaaauugaccugcccgugaagaggcgggcauaacacagc
aagacgagaagacccuauggagcuuuaauuuauuaaugcaccugcauuaa
aaauuucgguuggggcgaccucggagcagaacccaaccuccgagcaguac
augcuaagacuucaccagucaaagcgaaccucaauugauccaauaacuug
accaacggaacaaguuacccuagggauaacagcgcaauccuauucuagag
uccauaucaacaauaggguuuacgaccucgauguuggaucaggacauccc
gauggugcagccgcuauuaaagguucguuu

<<<.......<<<<..................................<.
.....>.....<.....<<.....>>....>..>>.>>............
.<<....>>.................>>>...........<<<.......
>>>...<.<........>.>.<<<<<<.........<<<.<<..<<....
>>...>>.>>>...<<.<..<<<<<.<.....<<<<<.<<<..<<<....
.>>>...<<<..<<<<........>>>>.>>>....>>>.>>>>>...<<
.......>>......>.>>>>...>..>.>>..<<<<<<....<<<<...
.>>>><<<.<<<<<<<.<<.....<<......>>.....>>.>>>>>>>.
.>>>.<<<<<<<<<<......>>>>>>>>>>...<<<......>>>....
<<<.<<<...<..............<....<<<.........>>>....>
.......<<<......>>>..........................>...>
>>>>>........>>>>>>...<<<<<......>>>>>.........>>>
>>><......<<..<<<....>>><<<<..<<<<........<<<<<...
>>>>>......<<<...<<<<.......................>>>>..
.....>>>.....<<......>>.>>>>.....>>>>..<<<<...<<<<
<<<<.<<.........<......<<<<<<..<<<.........>>>...<
<<<<<.............>>>>>>....<<<.......<<<.....<<..
......<<<<<<......>>>>>>........>>....>>>...<<<<<<
.....>>>>>>..........>>>....>>.>>>>.....>..>>.>>>>
>>>>>>>>.>>.....>.....<<<<<........>>>>>..........
.............<<<<.<<<<<<..<<<<<.<<<<<<......>>>>>>
>>>>>..<<<.......>>><<<<<<...........>>>>>>..<<...
..<<<..<<<<.....>>>>..>>>....>>.........<<<....>>>
............>>>>..>>>>>>.......<<<..<.<<<<<<...<<.
......>>...>>>>>>...>.>>.>.....................<<.
<<<<<<......>>>>>>...>>.......

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7pd3 Visualizing formation of the active site in the mitochondrial ribosome.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): N36 P37 S38 M60 K61 G62 R65 R66 R76
• Binding residue (residue number reindexed from 1): N13 P14 S15 M37 K38 G39 R42 R43 R53

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005654 nucleoplasm
• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7pd3, PDBe:7pd3, PDBj:7pd3
• PDBsum: 7pd3
• PubMed: 34609277
• UniProt: Q86TS9|RM52_HUMAN Large ribosomal subunit protein mL52 (Gene Name=MRPL52)