Structure of PDB 8rdv Chain Pj Binding Site BS01

Receptor Information
>8rdv Chain Pj (length=81) Species: 45610 (Psychrobacter urativorans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MVVIRLARGGAKKRPFYQVVVADQRRARDGRYIENIGFFNPLAKESEEAV
RLNMEAYHAWIAKGAQPSDRVASLVRAYNKA
Ligand information
>8rdv Chain iN (length=1503) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aaacugaagaguuugaucauggcucagauugaacgcuggcggcaggcuua
acacaugcaagucgagcgguaacaggagaagcuugcuucuugcugacgag
cggcggacgggugaguaauacuuaggaaucuaccuaguagugggggauag
cucggggaaacucgaauuaauaccgcauacgaccuacgggagaaaggggg
cucucgcuauuagaugagccuaagucggauuagcuagauggugggguaaa
ggccuaccauggcgacgaucuguagcuggucugagaggaugaucagccac
accgggacugagacacggcccggacuccuacgggaggcagcaguggggaa
uauuggacaaugggggcaacccugauccagccaugccgcgugugugaaga
aggccuuuugguuguaaagcacuuuaagcagugaagaagacuccgugguu
aauacccacggacgaugacauuagcugcagaauaagcaccggcuaacucu
gugccagcagccgcgguaauacagagggugcaagcguuaaucggaauuac
ugggcguaaagggagcguagguggcucgauaagucagaugugaaaucccc
gggcuuaaccugggaacugcaucugauacuguugagcuagaguaugugag
aggaagguagaauuccagguguagcggugaaaugcguagagaucuggagg
aauaccgauggcgaaggcagccuucuggcauaauacugacacugaggcuc
gaaagcguggguagcaaacaggauuagauacccugguaguccacgccgua
aacgaugucuacuagucguuggguccggacuuagugacgcagcuaacgca
auaaguagaccgccuggggaguacggccgcaagguuaaaacucaaaugaa
uugacgggggcccgcacaagcgguggagcauguuguuuaauucgaugcaa
cgcgaagaaccuuaccuggucuugacauaucuagaauccugcagagaugc
gggagugccuucgggaauuagaauacaggugcugcauggcugucgucagc
ucgugucgugagauguuggguuaagucccgcaacgagcgcaacccuuguc
cuuaguuaccagggaacucuaaggauacugccagugacaaacuggaggaa
ggcggggacgacgucaagucaucauggcccuuacgaccagggcuacacac
gugcuacaaugguagguacagagggcagcuacacagcgaugugaugcgaa
ucucaaaaagccuaucguaguccggauuggagucugcaacucgacuccau
gaaguaggaaucgcuaguaaucgcggaucagaaugccgcggugaauacgu
ucccgggccuuguacacaccgcccgucacaccaugggaguugauugcacc
agaaguggauagcuuaaccuucgggaaggcguucaccacggugugguuga
ugacuggggugaagucguaacaagguagccguaggggaaccugcggcugg
auc
........<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<....
.<<<.<<<..<<<..<<.<<..<<<<<<..........>>>.>>>>>..>
>>>>......<<.......<<<<<<<..<<...<<<<<<<<<.<<....<
.<<<<......>>>>.>.....>>.>......<<....>>.....<<<<.
.>>>>>>>>>>>>..>>.>>>>>>><<<....<<<..<<<<<<<<.....
..>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>
.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>.....
....<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<.....
.<<<<....>>>>.....>>>>...<.<<<<<.........<<<<<<<..
.....>>>>>>>...........>>>>>....>..<<<<<(((...<<<<
<.....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>........
..<<<((.....<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<
<<<.....>>>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<..
.<<<<<<<....<<<<<<<<...<<<......>>>......>>>>>>>>.
..........<<....>>.>>>>>>>..>>>.>>>>>...>>>...>>>>
....<<<<<<...<<...<<<<.<.....>.>>>>...>>>>>>>>....
......<<<<<<..<<<<<<<<<<<<>>>>>>>>>>>>...<<..))>>.
....>>>>>>.>>>.<<<......<<<<....>>>>....>>>..)))).
]<<<<<.<<<<<<<.<<.<<<<<<..<<<<<<<.<<......<<......
..>>..........<<<<<<<......<<<<<<<..<<<<<<<....>>>
>>>>...<<<..>>>..>>>>>.>>.<<<.<<<..<<<<<<.......<<
<<<<<<<....>>>..<<<<......>>>>..>>>>>>.....<<<<<<<
<<<<<...<<..>>....>>>>>>>>....<<<<<.....>>>>>.....
...>>>>.........>>>...>>>>>>>>>...>>>>>>>...>>..>>
>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>..>>...
.>>>.....>>>>>>>......<....<<<<<<<........>>>>>>>.
...>.....>>>>>>....<<<<<<<.........>>>>>>>......>>
...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<<<<<<
....<<<<<<.<<<<..<<....>>.>>>>>>>>>>...>>>>>>>>>>>
>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>..
...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8rdv A bacterial ribosome hibernation factor with evolutionary connections to eukaryotic protein synthesis
Resolution2.6 Å
Binding residue
(original residue number in PDB)		M1 V2 R5 L6 R8 G10 K12 K13 F16 Y17 D23 Q24 R25 R26 R28 G30 R31 Y32 F38 K44 E47 R51 W60 K63 G64 Q66 S68 R70 S73 R76
Binding residue
(residue number reindexed from 1)		M1 V2 R5 L6 R8 G10 K12 K13 F16 Y17 D23 Q24 R25 R26 R28 G30 R31 Y32 F38 K44 E47 R51 W60 K63 G64 Q66 S68 R70 S73 R76
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8rdv, PDBe:8rdv, PDBj:8rdv
PDBsum8rdv
PubMed38355796
UniProtA0A0M4T275

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