Structure of PDB 6gc4 Chain X Binding Site BS01

Receptor Information
>6gc4 Chain X (length=77) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRV
SAKGMRVIDKKGIDTVLAELRARGEKY
Ligand information
>6gc4 Chain A (length=2586) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggucaucccgacuuaccaa
cccgaugcaaacugcgaauaccggagaauguuaucacgggagacacacgg
cgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcua
aggucccaaagucaugguuaagugggaaacgaugugggaaggcgucggcc
ugcgcggaagauguaacggggcuaaaccaugcaccgaagcugcggcagcg
acgcuuaugcguuguuggguaggggagcguucuguaagccugcgaaggug
ugcugugaggcaugcuggagguaucagaagugcgaaugcugacauaagua
acgauaaagcgggugaaaagcccgcucgccggaagaccaaggguuccugu
ccaacguuaaucggggcagggugagucgaccccuaaggcgaggccgaaag
gcguagucgaugggaaacagguuaauauuccuguacuugguguuacugcg
aaggggggacggagaaggcuauguuggccgggcgacgguugucccgguuu
aagcguguaggcugguuuuccaggcaaauccggaaaaucaaggcugaggc
gugaugacgaggcacuacggugcugaagcaacaaaugcccugcuuccagg
aaaagccucuaagcaucagguaacaucaaaucguaccccaaaccgacaca
gguggucagguagagaauaccaaggcgcuugagagaacucgggugaagga
acuaggcaaaauggugccguaacuucgggagaaggcacgcugauauguag
gugaggucccucgcggauggagcugaaaucagucgaagauaccagcuggc
ugcaacuguuuauuaaaaacacagcacugugcaaacacgaaaguggacgu
auacggugugacgccugcccgguguaaacggcggccguaacuauaacggu
ccuaagguagcgaauggcguaaugauggccaggcugucuccacccgagac
ucagugaaauugaacucgcugugaagaugcaguguacccgcggcaagacg
gaaagaccccgugaaccuuuacuauagcuugacacugaacauugagccuu
gauguguaggauaggugggaggcuuugaaguguggacgccagucugcaug
gagccgaccuugaaauaccacccuuuaauguuugauguucuaacguugac
ccguaauccggguugcggacagugucugguggguaguuugacuggggcgg
ucuccuccuaaagaguaacggaggagcacgaagguuggcuaauccugguc
ggacaucaggagguuagugcaauggcauaagccagcuugacugcgagcgu
gacggcgcgagcaggugcgaaagcaggucauagugauccggugguucuga
auggaagggccaucgcucaacggauaaaagguacuccggggucccuaucu
gccgugggcgcuggagaacugaggggggcugcuccuaguacgagaggacc
ggaguggacgcaucacugguguucggguugucaugccaauggcacugccc
gguagcuaaaugcggaagagauaagugcugaaagcaucuaagcacgaaac
uugccccgagaugaguucucccugacccuuuaaggguccugaaggaacgu
ugaagacgacgacguugauaggccggguguguaagcgcagcgaugcguug
agcuaaccgguacuaaugaaccgugaggcuuaaccu
<<<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
.........}....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<
<<....<<<<<<......>>>>>>.....>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
.....>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<......<<...<<<.<<<<......<<.........>>......
.>>>>.>>>..>>.......>>>>>>.>>>...>>>>>>>.>...<<<<<
<<<<<......>>>>>>>>>>....<<<......>>>...<<<<.<<<..
.<<<(((.....<<<<<<...........<<..<<<<<..<<..>>..>>
>>>.>>...........))).....>>>>>>.>>>...>>>>>>><<<<<
..<......>..>>>>>....>>>>>><<<<<<<...<<<......<<<<
<<<<....>>>>>>>>...>>>..>>>>>.>>.....>>>>>><......
<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<...<<<<<
<...<<.....>>.>>>>>>....((<<<.<<<...<<<...<<<....>
>>...>>>...>>>..<<<<<........>>>>>))<<<<<<<<<<<<<.
..<<<<....<<<<..<<<..<<<<<<<<<<<....(((...>>>>>><<
..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>>>>..>>>>...>>
>>...>><..<<<<<....>>>>>...>>>>>>...>>>...>>>>....
.....>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<......
>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<..
.............<<<<<....<<..>>.....>>>>><<<<<<.....<
<<...<<<<.....>>>>...>>>...>>>>>>............<<<<<
<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>.....
..>>>>>>>.<<<<<.<<<..<<....>>>>>.<<<<<.......>>>>>
...............>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>
>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.(((.[
[......<<<<.[[<<<<..<<<<<.<<<.<<<<<.<<<<<<<<<<<.<<
<<...........<<<<<..<<<......<<<<.<<<....>>>.>>>>.
..>>>............>>>>>..>>>>.>>>>>>>>>>>...<<<.<<<
<<<.....>>>>>>>>>....>>>>>.>>>..>>>>>..<<<.......>
>><<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<..
.....>>>>>>.....<<...(((>>....>>>>>>>...<<<<..<<<<
....>>>>..>>>>.<<<....>>>.>>))).......<<<<<<<.((..
>>>>..))>>>>>>>.............>>>>..]]>>>>...]]..)))
>>>>>>>>....<<<<<<<...<<<<..<<<<<<<...............
>>>>>>>.<<<<<....<<<...<<<<<<<<<<<))).>>>>>>..>>>>
>...>>>..>>>>>...<<<....<<<<<...........>>>>>....>
>>.>>>>.......>>>>>>>..<<<<<.....>>>>><....<<..<<<
<<.......>>>>>....<<<<<<<<..<<....<<<<<....>>>>>..
.>>...>>>>>.>>>.....>>..>..>>>>>>>>.
Receptor-Ligand Complex Structure
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PDB6gc4 Structural Visualization of the Formation and Activation of the 50S Ribosomal Subunit during In Vitro Reconstitution.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		S1 R2 K9 T13 R17 S18 H19 A20 L21 K25 R26 R27 F28 L29 P30 N31 H33 H35 R36 K43 R44 F45 A52 K53 M55 R56 K60 K61
Binding residue
(residue number reindexed from 1)		S1 R2 K9 T13 R17 S18 H19 A20 L21 K25 R26 R27 F28 L29 P30 N31 H33 H35 R36 K43 R44 F45 A52 K53 M55 R56 K60 K61
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
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:0005829 cytosol
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6gc4, PDBe:6gc4, PDBj:6gc4
PDBsum6gc4
PubMed29883607
UniProtP0A7M2|RL28_ECOLI Large ribosomal subunit protein bL28 (Gene Name=rpmB)

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