Structure of PDB 8c8z Chain H Binding Site BS01

Receptor Information

>8c8z Chain H (length=50) Species: 562 (Escherichia coli)

MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEAR

Ligand information

>8c8z Chain A (length=2205)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucaccgggagauagc
ugguucuccccgaaagcuauuuagguagcgccucgugaauucaucuccgg
ggguagagcacuguuucggcaagcaacccgaugcaaacugcgaauaccgg
agaauguuaucacgggagacacacggcgggugcuaacguccgucgugaag
agggaaacaacccagaccgccagcuaaggucccaaagucaugguuaagug
ggaaacgaugugggaaggcgucggccugcgcggaagauguaacggggcua
aaccaugcaccgaagcugcggcagcgacgcuuaugcguuguuggguaggg
gagcguucuguaagccugcgaaggugugcugugaggcaugcuggagguau
cagaagugcgaaugcugacauaaguaacgauaaagcgggugaaaagcccg
cucgccggaagaccaaggguuccuguccaacguuaaucggggcaggguga
gucgaccccuaaggcgaggccgaaaggcguagucgaugggaaacagguua
auauuccuguacuugguguuacugcgaaggggggacggagaaggcuaugu
uggccgggcgacgguugucccgguuuaagcguguaggcugguuuuccagg
caaauccggaaaaucaaggcugaggcgugaugacgaggcacuacggugcu
gaagcaacaaaugcccugcuuccaggaaaagccucuaagcaucagguaac
aucaaaucguaccccaaaccgacacagguggucagguagagaauaccaag
gcgcuugagagaacucgggugaaggaacuaggcaaaauggugccgcugau
auguaggugaggucccucgcggauggagcugaaaucagucgaagauacca
gagacucagugaaauugaacucgcugugaagaugcaguguacccgcggca
agacggaaagaccccgugaaccuuuacuauagcuugacacugaacauugu
uugauguucuaacguugacccguaauccggguugcggacagugucuggug
gguaguuugacuggggcggucuccuccuaaagaguaacggaggagcacga
agguuggcuaauccuggucggacaucaggagguuagugcaauggcauaag
ccagcuugacugcgagcgugacggcgcgagcaggugcgaaagcaggucau
agugauccggugguucugaauggaagggccaucgcucaacggauaaaagg
uacuccggggucccuaucugccgugggcgcuggagaacugaggggggcug
cuccuaguacgagaggaccggaguggacgcaucacugguguucggguugu
caugccaauggcacugcccgguagcuaaaugcggaagagauaagugcuga
aagcaucuaagcacgaaacuugccccgagaugaguucucccugacccuuu
aaggguccugaaggaacguugaagacgacgacguugauaggccgggugug
uaagcgcagcgaugcguugagcuaaccgguacuaaugaaccgugaggcuu
aaccu

<<<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<......
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
.........}....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<....>>>>>>...>..>
.>>..<<<<<<....<<<........>>>.<<<<<<<<...<<<<<<<.<
<....<<<...<<<.<<<<........>>>>.>>>..>>.>.....>>>>
>>.>>>...>>>>>>>.>...<<<<<<<<<<......>>>>>>>>>>...
.<<<......>>>...<<<<.<<<...<<<(((.....<<<<<<......
.....<<..<<<<<..<<..>>..>>>>>.>>...........)))....
.>>>>>>.>>>...>>>>>>><<<<<<<<<....>>>>>>>>>....>>>
>>><.<<<<<...<<<......<<<<<<<<....>>>>>>>>...>>>..
>>>>>..>.....>>>>>><......<<.....<<<<<<.......>>>>
>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....
((<<<.<<<...<<<..<<<<....>>>.>.>>>...>>>..<<<<<...
.....>>>>>))<<<<<<<<<<<.....<<<<....<<<<..<<<..<<<
<<<<<<<<....(((...>>>>>><<..<<<<...<<<<<<<<<<<<.<<
.....>>>>>>>>>>..>>>>...>>>>...>><..<<<<<....>>>>>
...>>>>>>...>>>...>>>>.........>>>>.........>>>>>>
>>>>>.>>>..>>.....<<......>>>>>>>.<<<<.....>>>>..>
>>>..<<<<....<<.............................<<<<<<
.....<<<...<<<<.....>>>>...>>>...>>>>>>...........
.>>.>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.
(((.[[......<<<<.[[<<<<...<<<<.<<<.<<<<<.<<<<<<<..
..>>>>>>>...<<<.<<<<<<.....>>>>>>>>>....>>>>>.>>>.
.>>>>...<...........><<<<<<...........>>>>>>..<<..
.<<<<<<<...<<<<<<.......>>>>>>.....<<...(((>>....>
>>>>>>...<<<<..<<<<....>>>>..>>>>.<<<....>>>.>>)))
.......<<<<<<<.((..>>>>..))>>>>>>>.............>>>
>..]]>>>>...]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<
<<<<...............>>>>>>>.<<<<<...<<<<...<<<<<<<<
<<<))).>>>>>>..>>>>>...>>>>.>>>>>...<<<....<<<<...
..........>>>>....>>>.>>>>.......>>>>>>>..<<<<<...
..>>>>><....<<..<<<<<.......>>>>>....<<<<<<<<..<<.
...<<<<<....>>>>>...>>...>>>>>.>>>.....>>..>..>>>>
>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8c8z Cryo-EM captures early ribosome assembly in action.
• Resolution: 3.12 Å
• Binding residue (original residue number in PDB): M1 N11 L12 N20 V21 K22 A23 Y25 A26 R27 N28 V31
• Binding residue (residue number reindexed from 1): M1 N11 L12 N20 V21 K22 A23 Y25 A26 R27 N28 V31

Gene Ontology

Molecular Function

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

Biological Process

• 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:8c8z, PDBe:8c8z, PDBj:8c8z
• PDBsum: 8c8z
• PubMed: 36797249
• UniProt: P0A7R1|RL9_ECOLI Large ribosomal subunit protein bL9 (Gene Name=rplI)