Structure of PDB 8rd8 Chain Je Binding Site BS01

Receptor Information
>8rd8 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
>8rd8 Chain Z2 (length=2705) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gucaaguaaugaagcgcacaugguggaugccuuggcagucagaggcgaug
aaagacgugacagccugcgauaagcuucggggaggcggcaauauccugug
auccggagauuucugaauggggaaacccacuuaccauaagguagguaucu
ugaagaagcgaacgaggggaagugaaacaucucaguacccuuaggaaaag
acaucaaaugagauuccccaaguagcggcgagcgaacggggagaagccga
uuaaugcuaauguagaagaacagcgugggaaagcugaccguaguagguga
uaguccuguauucgaaacauuagcguuaacauauuaaguagggcgggaca
cgagaaauccugucugaagauggggggaccauccuccaaggcuaaauacu
ccugacugaccgauagugaaccaguaccgugagggaaaggcgaaaagaac
cccugugaggggagugaaauagaaccugaaaccgugugcguacaagcagu
aggagccucaauuuauuggggugacugcguaccuuuuguauaauggguca
gcgacuuauauucuguagcaagguuaaccguuuaggggagccguagggaa
accgagucuuaauagggcguaguugcaggguauagacccgaaaccgagug
aucuauccaugagcagguugaaagugccguaacaggcaccggaggaccga
acccacugucguugaaaagccaggggaugacuuguggauaggggugaaag
gcuaaucaaacucggugauagcugguucuccccgaaagcuauuuagguag
cgccucggacgaauaccauuggggguagagcacuguuucggcaccgaugc
aaacuccgaauaccgaugaguaauauccgggagacacacggcgggugcua
acguccgucguggagagggaaacaacccagaccgccagcuaaggccccaa
auuccuaguuaagugggaaacgaggugggaaggcauagacagcuaggagg
uuggcuuagaagcagccauccuuuaaagaaagcguaauagcucacuaguc
gagucggccugcgcggaagauguaacggggcucaaacuaggagccgaagc
ugcggauuugaaacuuguuuucaagugguaggggagcguuguguaagccu
gugaaggugugucguaaggcaugcuggagguaucacaagagcgaaugcug
acgugaguaacgauaaugcgagugaaaagcucgcacgccggaagaucaag
gguuccaguccaacguuaaucggggcugggugagucgaccccuaaggcga
ggccgaaaggcguagucgaugggaaauugguuaauauuccaauacuuguu
uauagugcgauggagggacggagaagguuaugucagccuggcguugguug
uccaggugaaaggauguaggcuuacaguuuaggcaaauccggacuguagg
cugagaucugauagcaaggaaguggcaaauaccaugcuuccaggaaaagc
uucuaagcgcuauaaacgaaucguacccuaaaccgacacaggugaucagg
uagagaauaccaaggcgcuugagagaacucugcugaaggaacuaggcaaa
augguaccguaacuucgggagaagguacgcuguugauggugauaggcucc
uugagcuuucgacagucgcagauaccaggcugcugcaacuguuuauuaaa
aacacagcacucugcaaacacgaaaguggacguauagggugugaugccug
cccggugcuggaagguuaauugaugggguuagcguaagcgaagcucuuga
ucgaagccccaguaaacggcggccguaacuauaacgguccuaagguagcg
aaauuccuugucagguaaguucugaccugcacgaauggcauaaugauggc
agcgcugucuccagcagagacucagugaaaucgaaaucgcagugaagaug
cuguguacccgcggcuagacggaaagaccccgugaaccuuuacuacagcu
uuacauugaacuuggguucuaacucagguauaacaauaccgaggacaaug
uaugguggguaguuugacuggggcggucuccuccuaaagaguaacggagg
aguacgaaggugcgcucagaacggucggaaaucguucauagaguauaaag
gcaaaagcgcgcuuaacugcgagacccacaagucgagcagguacgaaagu
aggucuuagugauccggugguucuguauggaagggccaucgcucaacgga
uaaaagguacucuggggauaacaggcugauaccgcccaagaguucauauc
gacggcgguguuuggcaccucgaugucggcucaucucauccuagggcuga
agcagguccuaaggguauggcuguucgccauuuaaagagguacgcgagcu
ggguuuagaacgucgugagacaguucggucccuaucuaccgugggcguug
gaaauuugagaggaucugcuccuaguacgagaggaccagaguggacgaac
cucugguguucggguugucacgccaguggcauugcccgguagcuacguuc
ggaugggauaaccgcugaaagcaucuaagcgggaagcccaccucaagauu
agauuucccuaaagagccguugaagacuacgacguugauaggcagggugu
ggaagugcagcgaugcauguagcuaaccuguacuaauugcucguuuggcu
ugacc
<<<<<<<......<<<<<<<<<<<.....[[.<<<<<<<<<<[[<<....
..<<<<<<.[..(((.>>>.....<<<<<<<..<<.)))..]..>>....
.>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<<<
<.>>>>.>>...<<<<<<.....<<....>>......>>>>>.>......
...<<....>>..<<<<<<.....<<.....>>....>>>>>>..((...
<<<<<<<<<<<<<.<<<...<<<<........>>>>((......<<<...
..))>>>...>>>...>>>>>>>>>>>>>...........<<<<<<<<..
.......>>>>>>>>......<<<<<..<<<<>>>>>...))......]]
.>>>>>>>.>>>..............<<....>>....]].........<
<<<.....>>>>..................>>>>>>>>>>>.......<<
<<..<<<<<<<....>>>>>>>..>>>>...<............>.<<<<
<<....<<<<<<<<<<<<<..<<<...<<.....>>...>>>...<<...
.>>..<<<<.....>>>>...>>>>>>>>>>>>>..<<.<...<<<<<<.
....<<<<<<<<<..<<<<....<<<<<......>>>>>..>...>>>..
.<<<.<<<.<........>.>>>>>>....>>>>>>>>>...<<<.....
>>>......>>>>>>......>.>>..<<<<<<....<<<<<....>>>>
>.<<<<<<<....<<<<<<<<<.....<<<...<<<.<<<<..>>>>.>>
>..>>.>.....>>>>>>.>>>...>>>>>>.>...<<<<<<<<<<....
..>>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<(((..
...<<<<<<...........<<..<<<<<..<<........<<<<<.<<<
..<<<<.......>>>>..>>>........<<<......>>>..>>>>>.
...>>..>>>>>.>>...........)))......>>>>>>.>>>...>>
>>>>><<<<<<<<.....>>>>>>>>....>>>>>>..<<<<<...<<<.
.....<<<<<<<<....>>>>>>>>...>>>..>>>>>........>>>>
>><......<<.....<<<<<<.......>>>>>><<<<....<<<<<.<
<...<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...<<<..
.<<<....>>>...>>>...>>>..<<<<<........>>>>>))<<<<<
<<<<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<...((((..
.>>>>>>....<<<<...<<<<.<<<<<<..<<.....>>.>>>>>>.>>
>>...>>>>.............>>>>>...>>>...>>>>.........>
>>>...>>>>>>>>>>>>>.>>>..>>.....<<......>>>>>>>.<<
<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<............
...<<<<<...............>>>>><<<<<<<<.<<<...<<<..>>
>...>>>.>>>>>>>>............<<<<<<<<<..<<<........
.>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.<
<<..<<<<<<<..<<<<...<...<<<<<..<<....>>...>>>>>.>.
....>>>>>>>>>..>>>>><<<<<<.......>>>>>>........<..
.........<<<<<<.....>>>>>>.....>....>>>>>..>>.>>>>
>>>.....>>.>>>>>>>>.>>>>>>.....>.....<<<<<........
>>>>>..<<<<<<<.<<<<.[[......<<<<.[[<<<<..<<<<<.<<<
.<<<<<.<<<<<..>>>>>...<<<.<<<<<....>>>>>>>>....>>>
>>.>>>..>>>>>..<<<<.....>>>><<<<<<...........>>>>>
>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((
>>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<<....>>
>.>>)))]......<<<<<<<.((..>>>>..))>>>>>>>.........
....>>>>..]]>>>>.......<<<<...<<<<<<...<<.......>>
...>>>>>>....>>>.>.......<<<<<.<<<<<<..<<<<<<<<<..
....>>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>>>
.>>....<<<<<<<....>>>.>>>>....]]..>>>>>>>>>>>....<
<<<<<<...<<<<..<<<<<<.................>>>>>>.<<<<<
...<<<<...<<<<<<<<<<<))))>>>>>>..>>>>>...>>>>.>>>>
>...<<<....<<<<<...........>>>>>....>>>.>>>>......
.>>>>>>>.....<<<<<<<<<.......>>>>>....<<<<<<<<..<<
....<<<<<....>>>>>...>>...>>>>>.>>>...>>>>.....>>>
>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8rd8 A new family of bacterial ribosome hibernation factors
Resolution2.62 Å
Binding residue
(original residue number in PDB)		M1 Q3 E5 S6 M7 I22 K23 L25 S28 H29 R30 R31 Y32 K40 K44 V57 K67 R70 G74 V76 R78 N82
Binding residue
(residue number reindexed from 1)		M1 Q3 E5 S6 M7 I22 K23 L25 S28 H29 R30 R31 Y32 K40 K44 V57 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:8rd8, PDBe:8rd8, PDBj:8rd8
PDBsum8rd8
PubMed38355796
UniProtA0A0M5MJS2

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