Structure of PDB 3jbv Chain p Binding Site BS01

Receptor Information

>3jbv Chain p (length=114) Species: 83333 (Escherichia coli K-12)

SNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIR
NRGLHSAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLR
ERTGKAARIKERLN

Ligand information

>3jbv Chain A (length=1530)

ugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaacac
augcaagucgaacgguaacaggaagaagcuugcuucuuugcugacgagug
gcggacgggugaguaaugucugggaaacugccugauggagggggauaacu
acuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagaggggg
accuucgggccucuugccaucggaugugcccagaugggauuagcuaguag
gugggguaacggcucaccuaggcgacgaucccuagcuggucugagaggau
gaccagccacacuggaacugagacacgguccagacuccuacgggaggcag
caguggggaauauugcacaaugggcgcaagccugaugcagccaugccgcg
uguaugaagaaggccuucggguuguaaaguacuuucagcggggaggaagg
gaguaaaguuaauaccuuugcucauugacguuacccgcagaagaagcacc
ggcuaacuccgugccagcagccgcgguaauacggagggugcaagcguuaa
ucggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucagaug
ugaaauccccgggcucaaccugggaacugcaucugauacuggcaagcuug
agucucguagagggggguagaauuccagguguagcggugaaaugcguaga
gaucuggaggaauaccgguggcgaaggcggcccccuggacgaagacugac
gcucaggugcgaaagcguggggagcaaacaggauuagauacccugguagu
ccacgccguaaacgaugucgacuuggagguugugcccuugaggcguggcu
uccggagcuaacgcguuaagucgaccgccuggggaguacggccgcaaggu
uaaaacucaaaugaauugacgggggcccgcacaagcgguggagcaugugg
uuuaauucgaugcaacgcgaagaaccuuaccuggucuugacauccacgga
aguuuucagagaugagaaugugccuucgggaaccgugagacaggugcugc
auggcugucgucagcucguguugugaaauguuggguuaagucccgcaacg
agcgcaacccuuauccuuuguugccagcgguccggccgggaacucaaagg
agacugccagugauaaacuggaggaagguggggaugacgucaagucauca
uggcccuuacgaccagggcuacacacgugcuacaauggcgcauacaaaga
gaagcgaccucgcgagagcaagcggaccucauaaagugcgucguaguccg
gauuggagucugcaacucgacuccaugaagucggaaucgcuaguaaucgu
ggaucagaaugccacggugaauacguucccgggccuuguacacaccgccc
gucacaccaugggaguggguugcaaaagaaguagguagcuuaaccuucgg
gagggcgcuuaccacuuugugauucaugacuggggugaagucguaacaag
guaaccguaggggaaccugcgguuggauca

....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<.<....<<<..<<........>>..>.>>..>..>>>
>>......<<.......<<<<<<<..<<...<<<<<<<...<<.....<<
<<<......>>>>>......>>.......<<......>>....<<<<<..
.<<....>>.>>>>>.>>>>>>>..>>.>>>>>>><<<....<<<..<<<
<<<<.........>>>>>>>>>>......>>>..<<<<<<<<....>>>>
...>>>>.>>.<<<<.<<.........>>>>>>.<<<<....>>>>...>
>>>>>.........<<<......<<....>>....>>>..>>.>>>>>>.
.<<<<.......<<<....>>>......>>>>...<.<<<<<......<<
...<<<...........>>>....>>.......>>>>>....>..<<<<<
(((...<<<<<.....<<.)))>>.......>>>>>>>>>>..>>>>>>>
>>..........<<<((.....<<<<...<<<.<<<<<<<.<<<<<<<<<
<......<<<<<<.....>>>>>>....>>>>>>>>..>>>>>>>>>...
<<<<<<<<...<<<<<<<....<<<<<<<<...<<<......>>>.....
.>>>>>>>>...........<<....>>.>>>>>>>..>>>>.>>>>...
>>>...>>>>....<<<<<<...<<...<<<<.<.....>.>>>>...>>
>>>>>>..........<<<<<<..<<<<<<<<<<<.......>>>>>>>>
>>>...<<..))>>.....>>>>>>.>>>.<<<......<<<<....>>>
>....>>>..)))).]<<<<<.<<<<<<<.<<.<<<.<<..<<<<<<<<<
<......<<........>>..........<<<<<<<......<<<<<<..
....<<<<....>>>>......<<....>>...>>>>.>>.<<<.<<...
<<<<<<.......<<<<<<<<<....>>>..<<<<......>>>>..>>>
>>>.....<<<..<<<<<<<...<<..<<<.....>>>>>....>>>>>>
>.....<<<<<.....>>>>>.........>>>.........>>>...>>
>.>>>>>...>>>>>>>...>>.>>>>>>>>.....<<<<<<<.....<<
<..<<...<<<....>>>...>>....>>>.....>>>>>>>........
...<<<<<<<........>>>>>>>..........>>.>>>....<<<<<
<<.........>>>>>>>......>>...>>>>>>>>>>.>>.......<
<.<.<<<<.<<<..<<<<<<<<<<<<.<..<<<<<<.<<<<..<<....>
>.>>>>>>>>>>..>>>>>>>>>>>>>..>>>.>>>>..>.>>.......
...<<<<<<<<....>>>>>>>>.......

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3jbv Mechanisms of ribosome stalling by SecM at multiple elongation steps
• Resolution: 3.32 Å
• Binding residue (original residue number in PDB): G105 K106 R109
• Binding residue (residue number reindexed from 1): G104 K105 R108

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit 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

External links

• PDB: RCSB:3jbv, PDBe:3jbv, PDBj:3jbv
• PDBsum: 3jbv
• PubMed: 26670735
• UniProt: P0A7K6|RL19_ECOLI Large ribosomal subunit protein bL19 (Gene Name=rplS)