Structure of PDB 8cam Chain y Binding Site BS01

Receptor Information

>8cam Chain y (length=58) Species: 679895 (Escherichia coli BW25113)

AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAV
SFMVKVEE

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): S12 I14 G15 P18 K19 A22 T23 L25 G26 G28 R30 R31 I32 R38 E39 A43 G46 M47
• Binding residue (residue number reindexed from 1): S11 I13 G14 P17 K18 A21 T22 L24 G25 G27 R29 R30 I31 R37 E38 A42 G45 M46

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

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

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cam, PDBe:8cam, PDBj:8cam
• PDBsum: 8cam
• PubMed: 37550453
• UniProt: P0AG51|RL30_ECOLI Large ribosomal subunit protein uL30 (Gene Name=rpmD)