Structure of PDB 5njt Chain u Binding Site BS01

Receptor Information
>5njt Chain u (length=58) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RKCVITGKKTTAGNNRSHAMNASKRTWGANLQKVRILVNGKPKKVYVSAR
ALKSGKVE
Ligand information
>5njt Chain U (length=2923) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuuga
uccggagauuuccgaauggggaaacccaccacucguaauggagugguauc
cauaucugaauucauaggauaugagaaggcagacccggggaacugaaaca
ucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcggc
gagcgaaacgggaucagcccaaaccaagaggcuugccucuugggguugua
ggacacucuguacggaguuacaaaggaacgagguagaugaagaggucugg
aaaggcccgccauaggagguaacagcccuguagucaaaacuucguucucu
ccugaguggauccugaguacggcggaacacgugaaauuccgucggaaucc
gggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaac
caguaccgugagggaaaggugaaaagcaccccggaaggggagugaaagag
auccugaaaccgugugccuacaaguagucagagcccguuaacgggugaug
gcgugccuuuuguagaaugaaccggcgaguuacgaucucgugcaagguua
agcagaagaugcggagccgcagcgaaagcgagucugaauagggcgcauga
guacguggucguagacccgaaaccaggugaucuacccauguccaggguga
aguucagguaacacugaauggaggcccgaacccacgcacguugaaaagug
cggggaugagguguggguaggggugaaaugccaaucgaaccuggagauag
cugguucucuccgaaauagcuuuagggcuagccucaagguaagagucuug
gagguagagcacugauuggacuaggggccccuaccggguuaccgaauuca
gucaaacuccgaaugccaaugacuuauccuugggagucagacugcgagug
auaagauccguagucgaaagggaaacagcccagaccgccagcuaaggucc
caaaguauacguuaaguggaaaaggauguggaguugcuuagacaaccagg
auguuggcuuagaagcagccaccauuuaaagagugcguaauagcucacug
gucgagugacucugcgccgaaaauguaccggggcuaaacguaucaccgaa
gcugcggacuguucuucgaacagugguaggagagcguucuaagggcugug
aagccagaccggaaggacugguggagcgcuuagaagugagaaugccggua
ugaguagcgaaagaggggugagaauccccuccaccgaaugccuaagguuu
ccugaggaaggcucguccgcucaggguuagucgggaccuaagccgaggcc
gaaaggcguaggcgauggacaacagguugauauuccuguaccaccuccuc
accauuugagcaauggggggacgcaggaggauaggguaagcgcgguauug
gauauccgcguccaagcaguuaggcugggaaauaggcaaauccguuuccc
auaagccugagcugugauggcgagcgaaauauaguagcgaaguuccugau
uccacacugccaagaaaagccucuagcgaggugagaggugcccguaccgc
aaaccgacacagguaggcgaggagagaauccuaaggugaucgagagaacu
cucguuaaggaacucggcaaaaugaccccguaacuucgggagaaggggug
cucuguuagggugcaagcccgagagagccgcagugaauaggcccaggcga
cuguuuagcaaaaacacaggucucugcgaagccguaaggcgaaguauagg
ggcugacgccugcccggugcuggaagguuaagaggagcgcuuagcguaag
cgaaggugcgaauugaagccccaguaaacggcggccguaacuauaacggu
ccuaagguagcgaaauuccuugucggguaaguuccgacccgcacgaaagg
cgcaacgaucugggcacugucucaacgagagacucggugaaauuauagua
ccugugaagaugcagguuacccgcgacaggacggaaagaccccguggagc
uuuacugcagccugauauugaauguugguacagcuuguacaggauaggua
ggagccuuggaaaccggagcgccagcuucgguggaggcaucggugggaua
cuacccuggcuguauugaccuucuaacccgccgcccuuaucgggcgggga
gacagugucaggugggcaguuugacuggggcggucgccuccuaaaaggua
acggaggcgcccaaagguucccucagaaugguuggaaaucauucgcagag
uguaaaggcacaagggagcuugacugcgagaccuacaagucgagcaggga
cgaaagucgggcuuagugauccggugguuccgcauggaagggccaucgcu
caacggauaaaagcuaccccggggauaacaggcuuaucucccccaagagu
ccacaucgacggggagguuuggcaccucgaugucggcucaucgcauccug
gggcuguagucggucccaaggguugggcuguucgcccauuaaagcgguac
gcgagcuggguucagaacgucgugagacaguucggucccuauccgucgcg
ggcgcaggaaauuugagaggagcuguccuuaguacgagaggaccgggaug
gacgcaccgcugguguaccaguuguucugccaagggcaucgcuggguagc
uaugugcggacgggauaagugcugaaagcaucuaagcaugaagccccccu
caagaugagauuucccauuccgcaaggaaguaagaucccugaaagaugau
cagguugauaggucugagguggaaguguggcgacacauggagcugacaga
uacuaaucgaucgaggacuuaac
<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<.....
.<<<<<<.....((.>>>.....<<<<<<<..<<<)).....>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<<<<<.........>>>>>>>.>>.>>....<<<<<<.....<<....
>>......>>>>>.>.........<<....>>...<<<<......<<...
..>>.....>>>>...(((....<<<<<<<<....>>>>>>>>......<
<<<<<<<<.....<<<<.......<<<<<<<<<<.<<<.....<<<<...
...>>>>.((......<<<.....))>>>...>>>...>>>>>>>>>>>>
>>.>>>>>..>>>>.....<<<<<<<<.........>>>>>>>>......
<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]]..........
.....<<....>>....]].........<<<<....>>>>..........
...}....>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>
>>...<.<........>.>.<<<<<<....<<<<<<<.<<<<<..<<<..
.<<<.....>>>...>>>...<<....>>..<<<<.....>>>>......
>>>>>.>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<<..
.<<<<<<......>>>>>>...>.>>>...<<<.<<<<<........>>>
>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>......
>.>>..<<<<<<....<<<<<....>>>>><<<<<<<<<...<<<<<<<<
<.....<<<...<<<<<<<<...<<<<<<<.....>>>>>.>>...>>>>
>>>>..>>.>.....>>>>.>>>>>..>>>>>>>.>>..<<<<<<<.<<.
.....>>.>>>>>>>....<<<......>>>...<<<<.<<<...<<<((
(.....<<<<<<...........<<..<<<<<<<<<........<<<<<.
<<...<<<.........>>>...>>.........<<......>>...>>>
>>....>>>>>>>>>.>>...........))).....>>>>>>.>>>...
>>>>>>><<<<<<<...>>>>>>>....>>>>>>..<<<<<<<.<<....
..<<<<<.<<....>>.>>>>>...>>.>>>>>>>........>>>>>><
......<<....<<<<<<.......>>>>>><<<<....<<<<<.<<<..
<<<<<<...<<.....>>.>>>>>>....((<<<<.<<.<.<<<...<<<
....>>>...>>>..>>>....<<<<........>>>>.))<<<<<.<<<
<<<......<<...<<<<....<<<<..<<<..<<<.<.<<<.<...{.{
....>.>>>.<<..<...<<<<<<<.<<<<<<<.<<.....>>>>>>>>>
....>>>>>.>>..>...>><..<<...........>>...>>.>>>...
>>>...>>>>.........>>>>..>>..>>>>>>>>>>>>>>>.>>>..
...<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<
<<<<<<.<<.........<.....<<<<<....<<..>>.....>>>>><
<<<<....<<<<....>>>>...>>>>>............<<<<<<<<<.
.<<<.........>>>..<<<<<<<.....<<<....>>>.......>>>
>>>>..<<<<.<<<..<<<<<<<..<<<...<<...<<<<<<.<<....>
>..>>>>>>...>>...>>>>>>>>..>>>>><<<<<<.......>>>>>
>........<...........<<<<<.......>>>>>.....>....>>
>>...>>.>>>>>>>..>..>>.>>>>>>>>.>>>>>>.....>.(...<
<<<<.......)>>>>>..<<<<<<<<.(((.[[......<<<<.[[<<<
<..<<<<<.<<<<<<<<<.<<<.<<<<<<<<<<<<...........<<<<
<..<<<......<<<<<<<<....>>>>>>>>...>>>............
>>>>>..>>>>>>>>>>>>.>>>....<<.<<<<<<.....>>>>>>>>.
....>>>>>>>>>..>>>>>..<<<<.....>>>><<<<<<.........
..>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<
<.[.(((>>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<
<....>>>.>>)))]......<<<<<<<.((..>>>>..))>>>>>>>..
...........>>>>..]]>>>>.......<<<<.<.<<<<<<...<<..
.....>>...>>>>>>...>>>>.>.......<<<<<.<<<<<<..<<<<
<<<<<......>>>>>>>..>>.<<<<<.....>>>>>.....>>>>>..
>...>>>.>>....<<<<<<<....>>>.>>>>....]]..)))>>>>>>
>>....<<<<<<<...<<<<..<<<<<<<...............>>>>>>
>.<<<<<...<<<<...<<<<<<<<<<<.}.}>>>>>>..>>>>>...>>
>>.>>>>>...<<<....<<<<<...........>>>>>....>>>.>>>
>.......>>>>>>>..<<<<....>>>>....<<<<<<<<<.......>
>>>>....<<<<<<<<.<<<....<<<<<....>>>>>...>>>..>>>>
>.>>>...>>>>....>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5njt Structure of the Bacillus subtilis hibernating 100S ribosome reveals the basis for 70S dimerization.
Resolution3.8 Å
Binding residue
(original residue number in PDB)
R3 T12 T13 N16 R18 S19 H20 A21 M22 N23 K26 R27 W29 A31 N32 Q34 G42 K45 K46 Y48 R52 K55 S56
Binding residue
(residue number reindexed from 1)
R1 T10 T11 N14 R16 S17 H18 A19 M20 N21 K24 R25 W27 A29 N30 Q32 G40 K43 K44 Y46 R50 K53 S54
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

View graph for
Cellular Component
External links
PDB RCSB:5njt, PDBe:5njt, PDBj:5njt
PDBsum5njt
PubMed28468753
UniProtP37807|RL28_BACSU Large ribosomal subunit protein bL28 (Gene Name=rpmB)

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