Structure of PDB 8phj Chain 2 Binding Site BS01

Receptor Information

>8phj Chain 2 (length=64) Species: 562 (Escherichia coli)

PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVS
KGDLGLVIACLPYA

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): P2 K3 I4 K5 T6 R8 K12 R13 T17 G18 K19 K23 H26 A27 N28 R30 H31 L33 T34 K35 T38 K39 R40 R42 R45 S51 K52 D54 Y64
• Binding residue (residue number reindexed from 1): P1 K2 I3 K4 T5 R7 K11 R12 T16 G17 K18 K22 H25 A26 N27 R29 H30 L32 T33 K34 T37 K38 R39 R41 R44 S50 K51 D53 Y63

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• 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: P0A7Q1|RL35_ECOLI Large ribosomal subunit protein bL35 (Gene Name=rpmI)