Structure of PDB 8phj Chain t Binding Site BS01

Receptor Information

>8phj Chain t (length=97) Species: 562 (Escherichia coli)

AAKIRRDDEVIVLTGKDKGKRGKVKNVLSSGKVIVEGINLVKKHQKPVPG
GIVEKEAAIQVSNVAIFNAATGKADRVGFRFEDGKKVRFFKSNSETI

Ligand information

>8phj Chain a (length=2862)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggucaucccgacuuaccaa
cccgaugcaaacugcgaauaccggagaauguuaucacgggagacacacgg
cgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcua
aggucccaaagucaugguuaagugggaaacgaugugggaaggcccagaca
gccaggauguuggcuuagaagcagccaucauuuaaagaaagcguaauagc
ucacuggucgagucggccugcgcggaagauguaacggggcuaaaccaugc
accgaagcugcggcagcgacgcgcguuguuggguaggggagcguucugua
agccugcgaaggugugcugugaggcaugcuggagguaucagaagugcgaa
ugcugacauaaguaacgauaaagcgggugaaaagcccgcucgccggaaga
ccaaggguuccuguccaacguuaaucggggcagggugagucgaccccuaa
ggcgaggccgaaaggcguagucgaugggaaacagguuaauauuccuguac
uugguguuacugcgaaggggggacggagaaggcuauguuggccgggcgac
gguugucccgguuuaagcguguaggcugguuuuccaggcaaauccggaaa
aucaaggcugaggcgugaugacgaggcacuacggugcugaagcaacaaau
gcccugcuuccaggaaaagccucuaagcaucagguaacaucaaaucguac
cccaaaccgacacagguggucagguagagaauaccaaggcgcuugagaga
acucgggugaaggaacuaggcaaaauggugccguaacuucgggagaaggc
acgcugauauguaggugaggucccucgcggauggagcugaaaucagucga
agauaccagcuggcugcaacuguuuauuaaaaacacagcacugugcaaac
acgaaaguggacguauacggugugacgccugcccggugccggaagguuaa
uugaugggguuagcgcaagcgaagcucuugaucgaagccccgguaaacgg
cggccguaacuauaacgguccuaagguagcgaaauuccuugucggguaag
uuccgaccugcacgaauggcguaaugauggccaggcugucuccacccgag
acucagugaaauugaacucgcugugaagaugcaguguacccgcggcaaga
cggaaagaccccgugaaccuuuacuauagcuugacacugaacauugagcc
uugauguguaggauagguggggacgccagucuccacccuuuaauguuuga
uguucuaacguugacccguaauccggguugcggacagugucuggugggua
guuugacuggggcggucuccuccuaaagaguaacggaggagcacgaaggu
uggcuaauccuggucggacaucaggagguuagugcaauggcauaagccag
cuugacugcgagcgugacggcgcgagcaggugcgaaagcaggucauagug
auccggugguucugaauggaagggccaucgcucaacggauaaaagguacu
ccggggauaacaggcugauaccgcccaagaguucauaucgacggcggugu
uuggcaccucgaugucggcucaucacauccuggggcugaaguagguccca
aggguauggcuguucgccauuuaaagugguacgcgagcuggguuuagaac
gucgugagacaguucggucccuaucugccgugggcgcuggagaacugagg
ggggcugcuccuaguacgagaggaccggaguggacgcaucacugguguuc
ggguugucaugccaauggcacugcccgguagcuaaaugcggaagagauaa
gugcugaaagcaucuaagcacgaaacuugccccgagaugaguucucccug
acccuuuaaggguccugaaggaacguugaagacgacgacguugauaggcc
ggguguguaagcgcagcgaugcguugagcuaaccgguacuaaugaaccgu
gaggcuuaaccu

<<<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<....>>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<
<<<...<<<<<<......>>>>>>.>...>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
..>..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<.....<<<...<<<.<<<<...<..<<<<.....>>>>...>..
.>>>>.>>>..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<
<<<<<......>>>>>>>>>>....<<<......>>>...<<<<.<<<..
.<<<(((.....<<<<<<...........<<..<<<<<..<<........
<<<<<.<<...<<<<.......>>>>...>>........<<<......>>
>..>>>>>....>>..>>>>>.>>...........))).....>>>>>>.
>>>...>>>>>>><<<<<<<<..>>>>>>>>....>>>>>><.<<<<<..
.<<<......<<<<<<<<....>>>>>>>>...>>>..>>>>>..>....
.>>>>>><......<<.....<<<<<<.......>>>>>><<<<....<<
<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...
<<<...<<<....>>>...>>>...>>>..<<<<<........>>>>>))
<<<<<<<<<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<....
(((...>>>>>><<..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>
>>>..>>>>...>>>>...>><..<<<<<....>>>>>...>>>>>>...
>>>...>>>>.........>>>>...>>....>>>>>>>>>>>.>>>..>
>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<...
.<<<<<<<<.<<...............<<<<<.....<..>......>>>
>><<<<<<.....<<<...<<<<.....>>>>...>>>...>>>>>>...
.........<<<<<<<<<..<<<.........>>>..<<<<<<<.....<
<<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<<..
.<...<<<<<..<<....>>...>>>>>..>....>>>>>>>>>..>>>>
><<<<<<.......>>>>>>........<...........<<<<<<....
.>>>>>>.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>
.>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.(((
.[[......<<<<.[[<<<<..<<<<<.<<<.<<<<<.<<<<<<<<<<<.
<<<.............<<<.<<<<....>>>>.>>>....>>>.>>>>>>
>>>>>...<<<.<<<<<<.....>>>>>>>>>....>>>>>.>>>..>>>
>>..<<<<.....>>>><<<<<<...........>>>>>>..<<...<<<
<<<<...<<<<<<.......>>>>>>.....<<...(((>>....>>>>>
>>...<<<<..<<<<....>>>>..>>>>.<<<....>>>.>>)))....
...<<<<<<<.((..>>>>..))>>>>>>>.............>>>>..]
]>>>>.......<<<<...<<<<<<...<<.......>>...>>>>>>..
..>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>>>>.
.>>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<<<<
<<<....>>>.>>>>....]]..)))>>>>>>>>....<<<<<<<...<<
<<..<<<<<<<...............>>>>>>>.<<<<<...<<<<...<
<<<<<<<<<<))).>>>>>>..>>>>>...>>>>.>>>>>...<<<....
<<<<<...........>>>>>....>>>.>>>>.......>>>>>>>..<
<<<<.....>>>>><....<<..<<<<<.......>>>>>....<<<<<<
<<..<<....<<<<<....>>>>>...>>...>>>>>.>>>.....>>..
>..>>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8phj Ribosomal stalk-captured CARF-RelE ribonuclease inhibits translation following CRISPR signaling
• Resolution: 3.67 Å
• Binding residue (original residue number in PDB): A2 K4 R6 R7 K17 V42 K43 K44 H45 Q46 K47 P48 G57 S68 N69 R82 K92 K97
• Binding residue (residue number reindexed from 1): A1 K3 R5 R6 K16 V41 K42 K43 H44 Q45 K46 P47 G51 S62 N63 R76 K86 K91

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8phj, PDBe:8phj, PDBj:8phj
• PDBsum: 8phj
• PubMed: 38033086
• UniProt: P60624|RL24_ECOLI Large ribosomal subunit protein uL24 (Gene Name=rplX)