Structure of PDB 7pd3 Chain s Binding Site BS01

Receptor Information
>7pd3 Chain s (length=370) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VARYPPIVASMTADSKAARLRRIERWQATVHAAESVDEKLRILTKMQFMK
YMVYPQTFALNADRWYQYFTKTVFLSGLPAALRAVACDCLLQEHFYLRRR
RRVHRYEESEVISLPFLDQLVSTLVGLLSPHNPALAAAALDYRCPVHFYW
VRGEEIIPRGHRRGRIDDLRYQIDDKPNNQIRISKQLAEFVPLDYSVPIE
IPTIKCKPDKLPLFKRQYENHIFVGSKTADPCCYGHTQFHLLPDKLRRER
LLRQNCADQIEVVFRANAIASLFAWTGAQAMYQGFWSEADVTRPFVSQAV
ITDGKYFSFFCYQLNTLALTTQADQNNPRKNICWGTQSKPLYETIEDNDV
KGFNDDVLLQIVHFLLNRPK
Ligand information
>7pd3 Chain A (length=1280) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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
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PDB7pd3 Visualizing formation of the active site in the mitochondrial ribosome.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		A49 S50 T52 A53 D54 S55 K56 A57 R59 R62 R65 W66 R81 K85 M86 M92 Y94 T97 F98 R160 R162 H164 R165 Y166 R219 G220 H221 R223 R225 K270 P272 F274 R276 Q277 R307 R310
Binding residue
(residue number reindexed from 1)		A9 S10 T12 A13 D14 S15 K16 A17 R19 R22 R25 W26 R41 K45 M46 M52 Y54 T57 F58 R100 R102 H104 R105 Y106 R159 G160 H161 R163 R165 K210 P212 F214 R216 Q217 R247 R250
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
GO:0006915 apoptotic process
GO:0032543 mitochondrial translation
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005762 mitochondrial large ribosomal subunit
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7pd3, PDBe:7pd3, PDBj:7pd3
PDBsum7pd3
PubMed34609277
UniProtQ9NP92|RT30_HUMAN Large ribosomal subunit protein mL65 (Gene Name=MRPS30)

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