Structure of PDB 6ydp Chain Bw Binding Site BS01

Receptor Information
>6ydp Chain Bw (length=387) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PVARYPPIVASLTAKSKAARQRRVEQWQATVHAAKSVDEKLRILTKMQFM
KYVVYPQTFALNADNWYQSFTKTVFLSGLPPTPAKLEPEPTLDITALREA
VCDCLLQEHFFLRRKKRAPVIQDREAIASPFLDQLVASLTGLLSVHNPVL
AAAALDCKRPVHFFWLRGEEIIPRGHRKGRVDALRYQINDKPHNQIRISR
QLPEFVPLDYSIPIEVPVMSCKPDKLPLFKRQYENTIFIGSKTADPLCYG
HTQFHLLPDKLKREKLLKQNCADQIEVVFRANAIASLFAWTGAQAMYQGF
WSEADVTRPFVSQGVITDGKYFSFFCYQLNTLALTAQADQNNPRKNICWG
TQSKPLYETIEDNNVKGFNDDVLLQLVQFLLNRPKED
Ligand information
>6ydp Chain BA (length=1544) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
accaaagcuagcucaacauacuaaacaaauacaaaaauacaccaaaauaa
aauaaaacauucaccuaacauuaaaguauaggagauagaaauuuuuaucc
ugacgcuauagagauaguaccguaagggaaagaugaaagaauaaaauaaa
aguaaaaaaaagcaaagauuaccccuucuaccuuuugcauaaugguuuaa
ccagaaaaaaucuaacaaagagaacuuuagcuagauaccccgaaaccaga
cgagcuacccaugagcaguuuaaaagaaccaacucaucuauguggcaaaa
uagugagaagacuuguagguagaggugaaaagccuaacgagccuggugau
agcugguuguccgagaaagaauuuuaguucaaccuuaaaaauaccccaaa
aacccuaaauuccaauguauuuuuaagagauagucuaaaaagguacagcu
uuuuagaaacggauacaaccuugacuagagaguaaaaucuuaauacuacc
auaguaggccuaaaagcagccaucaauugagaaagcguuaaagcucaaca
aauucaccaacauaaucccaaaaacuaauaacaaacuccuagcccaauac
cggacuaaucuauugaaacauagaagcaauaauguuaauaugaguaacaa
gaagccuuucuccucgcacacgcuuacaucaguaacuaauaauauacuga
uaauuaacaaccaauaaaccaaaacaacacuaaaacguuuauuaauuaca
uuguuaacccaacacaggagugcaccaaggaaagauuaaaagaaguaaaa
ggaacucggcaaacacaaaccccgccuguuuaccaaaaacaucaccucua
gcauuacuaguauuagaggcaaugccugcccagugacaccaguuuaacgg
ccgcgguauucugaccgugcaaagguagcauaaucacuuguucuccaaau
aaggacuuguaugaauggccacacgaggguuuuacugucucuuacuucca
aucagugaaauuaaccuucccgugaagaggcgggaauaaaaaaauaagac
gagaagacccuauggagcuuuaauuaacuauuccaaaaguuaauaacuua
acauggacuagcaauuucgguuggggugaccucggaguacaaaaaacccu
ccgagugauuuuaaucuagacaaaccagucaaaauaaccauaacaucacu
uauugauccaaaauuuugaucaacggaacaaguuacccuagggauaacag
cgcaauccuguucuagaguuccuaucgacaauaggguuuacgaccucgau
guuggaucaggacacccaaauggugcaaccgcuauuaaagguucguuugu
ucaacgauuaaaguccuacgugaucugaguucagaccggagcaauccagg
ucgguuucuaucuauuauaaauuucucccaguacgaaaggacaagagaaa
ugggaccaaccucacaaacgcgucucagagauaauuaaugauuuaaucuu
aaccuaauuaacucauaauaaauccagcccuagaacagggcaca
<<.<.....<<<<<....................................
...<......>...........<.....<<.....>>....>........
.>>.>>>............<<....>>...................>...
.>>...........<<<.......>>>...<.<........>.>..<<<<
<........<<<<<.<..<<....>>...>.>>>>>..<<.<..<<<<<.
<.....<<<.<<<<<..<<<......>>>...<<<..<<<<........>
>>>.>>>....>>>>>.>>>...<<<.....>>>......>.>>>>...>
..>.>>..<<<<<.....<<<<....>>>>..<<<<<<<<<<<<.....<
<........>>.....>>>>>>>>>>>.>....<<<<<<<<<......>>
>>>>>>>...<<......>>....<<<<.<<<..................
......<<<.........>>>............<<<......>>>.....
...................................>>>>>>>........
>>>>>...<<<<<......>>>>>.........>>>>>.<......<<..
<<<....>>><<<..<<<<........<<<<<....<<....>>..>>>>
>......<<<..<<<<<<<.................>>>>>>>.......
>>>.....<<......>>.>>>>.....>>>..<<<<....<<<<<<<.<
<...............<<<<<<<<..<<<.........>>>...<<<<<<
.............>>>>>>...<<<<.<<<..<<<<<....>>>..>>>>
><<<<<<......>>>>>>........<...........<<<<<......
.>>>>>.....>....>>>.>..>>.>>>>>>......>>.>>>>>>>.>
>>>.>>.....>.....<<<<<........>>>>>.......<<<.<<<.
<<......<<<<.<<<<<<..<<<<..<<<.<<<<.<<<<<<.>>>>>>.
...>>>>.>>>.>>>>..<<<<.....>>>><<<<<<...........>>
>>>>.<<<<....<<...<<<......>>>...>>.........>>>>..
........<<<....>>>............>>>>..>>>>>>.......<
<<..<.<<<<<<...<<.......>>...>>>>>>...>.>>.>......
.<<<<<.<<<<<<..<<.<<<<<<......>>>>>>...>>.<<<<<...
..>>>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>
>>....>>..>>>>>>.<<.<<<<<<<.................>>>>>>
><<<<<...<.........>.>>>>>.<<<.<.<<<<.............
....>>>>..>>>>.>>.........<<<<.......>>>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6ydp Structural insights into mammalian mitochondrial translation elongation catalyzed by mtEFG1.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		A49 S50 T52 K54 S55 K56 R59 R62 W66 I82 K85 M86 Q87 M89 Y94 T97 F98 K154 I160 R213 G214 H215 R216 K217 R219 K264 P266 F268 R270 Q271 K304 K307 Q308
Binding residue
(residue number reindexed from 1)		A10 S11 T13 K15 S16 K17 R20 R23 W27 I43 K46 M47 Q48 M50 Y55 T58 F59 K115 I121 R174 G175 H176 R177 K178 R180 K225 P227 F229 R231 Q232 K265 K268 Q269
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005739 mitochondrion
GO:0005762 mitochondrial large ribosomal subunit
GO:0005840 ribosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6ydp, PDBe:6ydp, PDBj:6ydp
PDBsum6ydp
PubMed32602580
UniProtA0A480QIM3

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