Structure of PDB 8cam Chain x Binding Site BS01

Receptor Information

>8cam Chain x (length=60) Species: 679895 (Escherichia coli BW25113)

KAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVA
RVKTLLNEKA

Ligand information

>8cam Chain a (length=2690)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguacacuaacuggaggaccgaaccgacuaauguugaaa
aauuagcggaugacuuguggcugggggugaaaggccaaucaaaccgggag
auagcugguucuccccgaaagcuauuuagguagcgccucgugaauucauc
uccggggguagagcacuguuucggcaacccgaugcaaacugcgaauaccg
gagaauguuaucacgggagacacacggcgggugcuaacguccgucgugaa
gagggaaacaacccagaccgccagcuaaggucccaaagucaugguuaagu
gggaaacgaugugggaaggcccagacagcgucgagucggccugcgcggaa
gauguaacggggcuaaaccaugcaccgaagcugcggcagcgacgcguugu
uggguaggggagcguucuguaagccugcgaaggugugcugugaggcaugc
uggagguaucagaagugcgaaugcugacauaaguaacgauaaagcgggug
aaaagcccgcucgccggaagaccaaggguuccuguccaacguuaaucggg
gcagggugagucgaccccuaaggcgaggccgaaaggcguagucgauggga
aacagguuaauauuccuguacuugguguuacugcgaaggggggacggaga
aggcuauguuggccgggcgacgguugucccgguuuaagcguguaggcugg
uuuuccaggcaaauccggaaaaucaaggcugaggcgugaugacgaggcac
uacggugcugaagcaacaaaugcccugcuuccaggaaaagccucuaagca
ucagguaacaucaaaucguaccccaaaccgacacagguggucagguagag
aauaccaaggcgcuugagagaacucgggugaaggaacuaggcaaaauggu
gccguaacuucgggagaaggcacgcugauauguaggugaggucccucgcg
gauggagcugaaaucagucgaagauaccagcuggcugcaacuguuuauua
aaaacacagcacugugcaaacacgaaaguggacguauacggugugacgcc
ugcccggugccggaagguuaauugaugggguuagcgcaagcgaagcucuu
gaucgaagccccgguaaacggcguaagguagcgaaauuccuugucgggua
aguuccgaccugcacgaauggcguaaugauggccaggcugucuccacccg
agacucagugaaauugaacucgcugugaagaugcaguguacccgcggcaa
gacggaaagaccccgugaaccuuuacuauagcuugacacugaacauguuc
uaacguugacccguaauccggguugcggacagugucugguggguaguuug
acuggggcggucuccuccuaaagaguaacggaggagcacgaagguuggcu
aaucagguuagugcaauggcauaagccagcuugacugcgagcgugacggc
gcgagcaggugcgaaagcaggucauagugauccggugguucugaauggaa
gggccaucgcucaacggauaaaagguacuccggggauaacaggcugauac
cgcccaagaguucauaucgacggcgguguuuggcaccucgaugucggcuc
aucacauccuggggcugaaguaggucccaaggguauggcuguucgccauu
uaaagugguacgcgagcuggguuuagaacgucgugagacaguucgguccc
uaucugccgugggcgcuggagaacugaggggggcugcuccuaguacgaga
ggaccggaguggacgcaucacugguguucggguugucaugccaauggcac
ugcccgguagcuaaaugcggaagagauaagugcugaaagcaucuaagcac
gaaacuugccccgagaugaguucucccugacccuuuaaggguccugaagg
aacguugaagacgacgacguugauaggccggguguguaagcgcagcgaug
cguugagcuaaccgguacuaaugaaccgugaggcuuaacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cam Structural conservation of antibiotic interaction with ribosomes.
• Resolution: 1.86 Å
• Binding residue (original residue number in PDB): A3 K4 R7 Q39 S40 H41 R47 R48 A51 R52 K54 T55 N58 E59
• Binding residue (residue number reindexed from 1): A2 K3 R6 Q38 S39 H40 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:8cam, PDBe:8cam, PDBj:8cam
• PDBsum: 8cam
• PubMed: 37550453
• UniProt: P0A7M6|RL29_ECOLI Large ribosomal subunit protein uL29 (Gene Name=rpmC)