Structure of PDB 6gc6 Chain L Binding Site BS01

Receptor Information

>6gc6 Chain L (length=109) Species: 83333 (Escherichia coli K-12)

RLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKAAITAEIRLSDLAKV
EGGVVDLNTLKAANIIGIQIEFAKVILAGEVTTPVTVRGLRVTKGARAAI
EAAGGKIEE

Ligand information

>6gc6 Chain A (length=2092)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcaccaaacugcgaauaccggagaauguuaucacggg
agacacacggcgggugcuaacguccgucgugaagagggaaacaacccaga
ccgccagcuaaggucccaaagucaugguuaagugggaaacgcggaagaug
uaacggggcuaaaccaugcaccgaagcugcggcagcgacgcuuaugcguu
guuggguaggggagcguucuguaagccugcgaaggugugcugugaggcau
gcuggagguaucagaagugcgaaugcugacauaaguaacgauaaagcggg
ugaaaagcccgcucgccggaagaccaaggguuccuguccaacguuaaucg
gggcagggugagucgaccccuaaggcgaggccgaaaggcguagucgaugg
gaaacagguuaauauuccuguacuugguguuacugcgaaggggggacgga
gaaggcuauguuggccgggcgacgguugucccgguuuaagcguguaggcu
gguuuuccaggcaaauccggaaaaucaaggcugaggcgugaugacgaggc
acuacggugcugaagcaacaaaugcccugcuuccaggaaaagccucuaag
caucagguaacaucaaaucguaccccaaaccgacacagguggucagguag
agaauaccaaggcgcuugagagaacucgggugaaggaacuaggcaaaaug
gugccguaacuucgggagaaggcacgcugauauguaggugaggucccucg
cggauggagcugaaaucagucgaagauaccagcuggcugcaacuguuuau
uaaaaacacagcacugugcaaacacgaaaguggacguauacggugugacg
ccuggaauggcguaaugauggccaggcugucuccacccgagacucaguga
aauugaacucgcugugaagaugcaguguacccgcggcaagacggaaaucc
cuaucugccgugggcgcuggagaacugaggggggcugcuccuaguacgag
aggaccggaguggacgcaucacugguguucggguugucaugccaauggca
cugcccgguagcuaaaugcggaagagauaagugcugaaagcaucuaagca
cgaaacuugccccgagaugaguucucccugacccuuuaaggguccugaag
gaacguugaagacgacgacguugauaggccggguguguaagcgcagcgau
gcguugagcuaaccgguacuaaugaaccgugaggcuuaaccu

<<<<<<<<......<<<<<<<<<<<....<.<<.<<<<<<<<<<<<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<......>..<<<<<<.....<<....
.>>....>>>>>>..<<<..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>.>..>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<......>>>>>..>>>......>>.>>>>>>>.>>.....
..........<<....>>....>>.........<<<<.....>>>>....
.........>....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<
<<....<<<<<<......>>>>>>.....>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
.....>.>>..<<<<<<....<<<<<....>>>>>..<<<<<<<...<<<
<<<<<<......<<.......>>.......>>>>>>.>>>...>>>>>>>
.....<<<<<<<<<<......>>>>>>>>>>....<<<......>>>...
<<<<.<<<...<<<(((.....<<<<<<...........<<>>.......
....))).....>>>>>>.>>>...>>>>>>><<<<<..<......>..>
>>>>....>>>>>><<<<<<<...<<<......<<<<<<<<....>>>>>
>>>...>>>..>>>>>.>>.....>>>>>><......<<.....<<<<<<
.......>>>>>><<<<....<<.<<.<<...<<<<<<...<<.....>>
.>>>>>>....((<<<.<<<...<<....<<<....>>>....>>...>>
>..<<<<<........>>>>>))<<<<<<<<<<<<<...<<<<....<<<
<..<<<..<<<<<<<<<<<....(((...>>>>>><<..<<<<...<<<<
<<<<<<<<.<<.....>>>>>>>>>>..>>>>...>>>>...>><..<<<
<<....>>>>>...>>>>>>...>>>...>>>>.........>>>>...>
>....>>>>>>>>>>>.>>>..>>.....<<......>>>>.>>.<<<<.
....>>>>..>>>>..<<<<....<<<<<<<<.<<...............
<<<<<.....<..>......>>>>><<<<<......<<<...<<<<....
.>>>>...>>>....>>>>>............<<<<<<<<<..<<<....
.....>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<
<<......>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>..
...>.....<<<<<........>>>>>..<<<<<<<<.<<<.<<.....>
>..>>>>>>>>>>>....<<<<<<<...<<<<..<<<<<<<.........
......>>>>>>>.<<<<<...<<<<...<<<<<<<<<<<))).>>>>>>
..>>>>>...>>>>.>>>>>...<<<....<<<<<...........>>>>
>....>>>.>>>>.......>>>>>>>..<<<<<.....>>>>>.....<
<..<<<<<.......>>>>>....<<<<<<<<..<<....<<<<<....>
>>>>...>>...>>>>>.>>>.....>>.....>>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6gc6 Structural Visualization of the Formation and Activation of the 50S Ribosomal Subunit during In Vitro Reconstitution.
• Resolution: 4.3 Å
• Binding residue (original residue number in PDB): L3 N4 P8 G11 S12 K13 K14 K17 R18 L19 G20 R21 G22 G24 L27 K29 T30 G32 R33 H35 K70 A71 E76 R78 K109 I111 L112 A113 R126 T128 K129 G130
• Binding residue (residue number reindexed from 1): L2 N3 P7 G10 S11 K12 K13 K16 R17 L18 G19 R20 G21 G23 L26 K28 T29 G31 R32 H34 K35 A36 E41 R43 K74 I76 L77 A78 R91 T93 K94 G95

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• 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:6gc6, PDBe:6gc6, PDBj:6gc6
• PDBsum: 6gc6
• PubMed: 29883607
• UniProt: P02413|RL15_ECOLI Large ribosomal subunit protein uL15 (Gene Name=rplO)