Structure of PDB 6gc6 Chain 2 Binding Site BS01

Receptor Information

>6gc6 Chain 2 (length=46) Species: 83333 (Escherichia coli K-12)

MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLTVSK

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): M1 K2 R3 T4 F5 Q6 S8 V9 L10 K11 N13 R14 H16 G17 F18 R19 K25 N26 Q29 V30 R34 R35 K37 G38 R39 A40 S45 K46
• Binding residue (residue number reindexed from 1): M1 K2 R3 T4 F5 Q6 S8 V9 L10 K11 N13 R14 H16 G17 F18 R19 K25 N26 Q29 V30 R34 R35 K37 G38 R39 A40 S45 K46

Gene Ontology

Molecular Function

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

Biological Process

• 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:6gc6, PDBe:6gc6, PDBj:6gc6
• PDBsum: 6gc6
• PubMed: 29883607
• UniProt: P0A7P5|RL34_ECOLI Large ribosomal subunit protein bL34 (Gene Name=rpmH)