Structure of PDB 8rdv Chain Je Binding Site BS01

Receptor Information
>8rdv Chain Je (length=122) Species: 45610 (Psychrobacter urativorans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MIQVESMLEVADNSGARRVQCIKVLGGSHRRYASVGDIIKVTVKEAIPRG
RVKKGDVMNAVVVRTKKGVRRPDGSVLRFDDNAAVLLNQNKAPIATRIFG
PVTRELRGDQFMKIVSLAPEVL
Ligand information
>8rdv Chain Z2 (length=2710) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gucaaguaaugaagcgcacaugguggaugccuuggcagucagaggcgaug
aaagacgugacagccugcgauaagcuucggggaggcggcaauauccugug
auccggagauuucugaauggggaaacccacuuaccauaagguagguaucu
uguacaagaagcgaacgaggggaagugaaacaucucaguacccuuaggaa
aagacaucaaaugagauuccccaaguagcggcgagcgaacggggagaagc
cgauuaaugcuaauguagaagaacagcgugggaaagcugaccguaguagg
ugauaguccuguauucgaaacauuagcguuaacauauuaaguagggcggg
acacgagaaauccugucugaagauggggggaccauccuccaaggcuaaau
acuccugacugaccgauagugaaccaguaccgugagggaaaggcgaaaag
aaccccugugaggggagugaaauagaaccugaaaccgugugcguacaagc
aguaggagccucaauuuauuggggugacugcguaccuuuuguauaauggg
ucagcgacuuauauucuguagcaagguuaaccguuuaggggagccguagg
gaaaccgagucuuaauagggcgucuaguugcaggguauagacccgaaacc
gagugaucuauccaugagcagguugaaagugccguaacaggcaccggagg
accgaacccacugucguugaaaagccaggggaugacuuguggauaggggu
gaaaggcuaaucaaacucggugacagcugguucuccccgaaagcuauuua
gguagcgccucggacgaauaccauuggggguagagcacuguuucggcacc
gaugcaaacuccgaauaccgaugaguaauauccgggagacacacggcggg
ugcuaacguccgucguggagagggaaacaacccagaccgccagcuaaggc
cccaaauuccuaguuaagugggaaacgaggugggaaggcauagacagcua
ggagguuggcuuagaagcagccauccuuuaaagaaagcguaauagcucac
uagucgagucggccugcgcggaagauguaacggggcucaaacuaggagcc
gaagcugcggauuugaaacuuguuuucaagugguaggggagcguugugua
agccugugaaggugugucguaaggcaugcuggagguaucacaagagcgaa
ugcugacgugaguaacgauaaugcgagugaaaagcucgcacgccggaaga
ucaaggguuccaguccaacguuaaucggggcugggugagucgaccccuaa
ggcgaggccgaaaggcguagucgaugggaaauugguuaauauuccaauac
uuguuuauagugcgauggagggacggagaagguuaugucagccuggcguu
gguuguccaggugaaaggauguaggcuuacaguuuaggcaaauccggacu
guaggcugagaucugauagcaaggaaguggcaaauaccaugcuuccagga
aaagcuucuaaggcuauaaacgaaucguacccuaaaccgacacaggugau
cagguagagaauaccaaggcgcuugagagaacucugcugaaggaacuagg
caaaaugguaccguaacuucgggagaagguacgcuguugauggugauagg
ucuccuugagcuuucgacagucgcagauaccaggcugcugcaacuguuua
uuaaaaacacagcacucugcaaacacgaaaguggacguauagggugugau
gccugcccggugcuggaagguuaauugaugggguuagcguaagcgaagcu
cuugaucgaagccccaguaaacggcggccguaacuauaacgguccuaagg
uagcgaaauuccuugucagguaaguucugaccugcacgaauggcauaaug
auggcagcgcugucuccagcagagacucagugaaaucgaaaucgcaguga
agaugcuguguacccgcggcuagacggaaagaccccgugaaccuuuacua
cagcuuuacauugaacuuggguucuaacucagguauaacaauaccgagga
caauguaugguggguaguuugacuggggcggucuccuccuaaagaguaac
ggaggaguacgaaggugcgcucagaacggucggaaaucguucauagagua
uaaaggcaaaagcgcgcuuaacugcgagacccacaagucgagcagguacg
aaaguaggucuuagugauccggugguucuguauggaagggccaucgcuca
acggauaaaagguacucuggggauaacaggcugauaccgcccaagaguuc
auaucgacggcgguguuuggcaccucgaugucggcucaucucauccuagg
gcugaagcagguccuaaggguauggcuguucgccauuuaaagagguacgc
gagcuggguuuagaacgucgugagacaguucggucccuaucuaccguggg
cguuggaaauuugagaggaucugcuccuaguacgagaggaccagagugga
cgaaccucugguguucggguugucacgccaguggcauugcccgguagcua
cguucggaugggauaaccgcugaaagcaucuaagcgggaagcccaccuca
agauuagauuucccuaaagagccguugaagacuacgacguugauaggcag
gguguggaagugcagcgaugcauguagcuaaccuguacuaauugcucguu
uggcuugacc
<<<<<<<......<<<<<<<<<<<.....<<.<<<<<<<<<<<<<<....
..<<<<<<.[..(((.>>>.....<<<<<<<..<<.)))..]..>>....
.>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<<<
<<..>>>>>.>>...<<<<<<.....<<....>>......>>>>>.>...
......<<....>>..<<<<<<.....<<.....>>....>>>>>>..<<
<..<<<<<<<<<<<<<.<<<...<<<<........>>>>((......<<<
.....))>>>...>>>...>>>>>>>>>>>>>...........<<<<<<<
<.........>>>>>>>>......<<<<<..((((>>>>>..>>>.....
.>>.>>>>>>>.>>>..............<<....>>....>>.......
..<<<<.....>>>>..................>>>>>>>>>>>......
.<<<<..<<<<<<<....>>>>>>>..>>>>...<............>.<
<<<<<....<<<<<<<<<<<<<..<<<...<<.....>>...>>>...<<
....>>..<<<<.....>>>>.....>>>>>>>>>>>>>..<<.<...<<
<<<<.....<<<<<<<<<..<<<<....<<<<<......>>>>>..>...
>>>...<<<.<<<.<........>.>>>>>>....>>>>>>>>>...<<<
.....>>>......>>>>>>......>.>>..<<<<<<....<<<<<...
.>>>>>.<<<<<<<....<<<<<<<<<.....<<<...<<<.<<<<..>>
>>.>>>..>>.>.....>>>>>>.>>>...>>>>>>.>...<<<<<<<<<
<......>>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<
(((.....<<<<<<...........<<..<<<<<..<<........<<<<
<.<<<..<<<<.......>>>>..>>>........<<<......>>>..>
>>>>....>>..>>>>>.>>...........)))......>>>>>>.>>>
...>>>>>>><<<<<<.<.....>.>>>>>>....>>>>>>..<<<<<..
.<<<......<<<<<<<<....>>>>>>>>...>>>..>>>>>.......
.>>>>>><......<<.....<<<<<<.......>>>>>><<<<....<<
<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...
<<<...<<<....>>>...>>>...>>>..<<<<<........>>>>>))
<<<<<<<<<<<.<...<<<<....<<<<..<<<..<<<<<<<<<<<...[
[[[...>>>>>>....<<<<...<<<<<<<<<<<..<<.....>>.>>>>
>>>>>>>...>>>>.............>>>>>...>>>...>>>>.....
....>>>>...>>>>>>>>>>>>.>>>..>>.....<<......>>>>>>
>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<........
.......<<<<<...............>>>>><<<<<<<<.<<<...<<<
...>>>...>>>.>>>>>>>>............<<<<<<<<<..<<<...
......>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<
<<<.<<<..<<<<<<<..<<<....<...<<<<<<.<<....>>..>>>>
>>..>.....>>>>>>>>..>>>>><<<<<<.......>>>>>>......
..<...........<<<<<<.....>>>>>>.....>....>>>>>..>>
.>>>>>>>.....>>.>>>>>>>>.>>>>>>.....>.....<<<<<...
.....>>>>>..<<<<<<<.<<<<.<<......<<<<.<<<<<<..<<<<
<.<<<.<<<<<.<<<<<..>>>>>...<<<.<<<<<....>>>>>>>>..
..>>>>>.>>>..>>>>>..<<<<.....>>>><<<<<<...........
>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.
[.(((>>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<<.
...>>>.>>)))]......<<<<<<<.<<..))))..>>>>>>>>>....
.........>>>>..>>>>>>.......<<<<...<<<<<<...<<....
...>>...>>>>>>....>>>.>.......<<<<<.<<<<<<..<<<<<<
<<<......>>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>.
..>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>>>>>>>>>
....<<<<<<<...<<<<..<<<<<<.................>>>>>>.
<<<<<...<<<<...<<<<<<<<<<<]]]]>>>>>>..>>>>>...>>>>
.>>>>>...<<<....<<<<<...........>>>>>....>>>.>>>>.
......>>>>>>>.....<<<<<<<<<.......>>>>>....<<<<<<<
<..<<....<<<<<....>>>>>...>>...>>>>>.>>>...>>>>...
..>>>>>>>.
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 Q3 E5 S6 M7 I22 K23 L25 G27 S28 H29 R30 R31 Y32 K40 T42 K44 K54 V57 K66 K67 R70 G74 V76 R78 N82
Binding residue
(residue number reindexed from 1)		M1 Q3 E5 S6 M7 I22 K23 L25 G27 S28 H29 R30 R31 Y32 K40 T42 K44 K54 V57 K66 K67 R70 G74 V76 R78 N82
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
GO:0070180 large ribosomal subunit rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015934 large ribosomal subunit
GO:0022625 cytosolic large 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
UniProtA0A0M5MJS2

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