Structure of PDB 8b0x Chain x Binding Site BS01

Receptor Information

>8b0x Chain x (length=62) Species: 37762 (Escherichia coli B)

KAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVA
RVKTLLNEKAGA

Ligand information

>8b0x Chain a (length=2748)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacagcugugu
gacugcguaccuuuuguauaaugggucagcgacuuauauucuguagcaag
guuaaccgaauaggggagccgaagggaaaccgagucuuaacugggcguua
aguugcaggguauagacccgaaacccggugaucuagccaugggcagguug
aagguuggguaacacuaacuggaggaccgaaccgacuaauguugaaaaau
uagcggaugacuuguggcugggggugaaaggccaaucaaaccgggagaua
gcugguucuccccgaaagcuauuuagguagcgccucgugaauucaucucc
ggggguagagcacuguuucggcaagggggucaucccgacuuaccaacccg
augcaaacugcgaauaccggagaauguuaucacgggagacacacggcggg
ugcuaacguccgucgugaagagggaaacaacccagaccgccagcuaaggu
cccaaagucaugguuaagugggaaacgaugugggaaggcccagacagcgu
cgagucggccugcgcggaagauguaacggggcuaaaccaugcaccgaagc
ugcggcagcgacgcgcguuguuggguaggggagcguucuguaagccugug
aaggugugcugugaggcaugcuggagguaucagaagugcgaaugcugaca
uaaguaacgauaaagcgggugaaaagcccgcucgccggaagaccaagggu
uccuguccaacguuaaucggggcagggugagucgaccccuaaggcgaggc
cgaaaggcguagucgaugggaaacagguuaauauuccuguacuugguguu
acugcgaaggggggacggagaaggcuauguuggccgggcgacgguugucc
cgguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggc
ugaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcu
uccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaacc
gacacagguggucagguagagaauaccaaggcgcuugagagaacucgggu
gaaggaacuaggcaaaauggugccguaacuucgggagaaggcacgcugau
auguaggugaggucccucgcggauggagcugaaaucagucgaagauacca
gcuggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaagu
ggacguauacggugugacgccugcccggugccggaagguuaauugauggg
guuagcggcgcgaagcucuugaucgaagccccgguaaacggcggccguaa
cuauaacgguccuaagguagcgaaauuccuugucggguaaguuccgaccu
gcacgaauggcguaaugauggccaggcugucuccacccgagacucaguga
aauugaacucgcugugaagaugcaguguacccgcggcaagacggaaagac
cccgugaaccuuuacuauagcuugacacugaacauauguucuaacguugg
ccccugaucgggguugcggacagugucugguggguaguuugacuggggcg
gucuccuccuaaagaguaacggaggagcacgaagguuggcuaauccuggu
cggacaucaggagguuagugcaauggcauaagccagcuugacugcgagcg
ugacggcgcgagcaggugcgaaagcaggucauagugauccggugguucug
aauggaagggccaucgcucaacggauaaaagguacuccggggauaacagg
cugauaccgcccaagaguucauaucgacggcgguguuuggcaccucgaug
ucggcucaucacauccuggggcugaaguaggucccaaggguauggcuguu
cgccauuuaaagugguacgcgagcuggguuuagaacgucgugagacaguu
cggucccuaucugccgugggcgcuggagaacugaggggggcugcuccuag
uacgagaggaccggaguggacgcaucacugguguucggguugucaugcca
auggcacugcccgguagcuaaaugcggaagagauaagugcugaaagcauc
uaagcacgaaacuugccccgagaugaguucucccugacuccuugagaguc
cugaaggaacguugaagacgacgacguugauaggccggguguguaagcgc
agcgaugcguugagcuaaccgguacuaaugaaccgugaggcuuaaccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8b0x The translating bacterial ribosome at 1.55 angstrom resolution generated by cryo-EM imaging services.
• Resolution: 1.55 Å
• Binding residue (original residue number in PDB): A3 K4 R7 Q39 S40 H41 K44 R47 R48 A51 R52 K54 T55 N58 E59
• Binding residue (residue number reindexed from 1): A2 K3 R6 Q38 S39 H40 K43 R46 R47 A50 R51 K53 T54 N57 E58

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• 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:8b0x, PDBe:8b0x, PDBj:8b0x
• PDBsum: 8b0x
• PubMed: 36841832
• UniProt: P0A7M6|RL29_ECOLI Large ribosomal subunit protein uL29 (Gene Name=rpmC)