Structure of PDB 3jbu Chain Q Binding Site BS01

Receptor Information

>3jbu Chain Q (length=80) Species: 83333 (Escherichia coli K-12)

KIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNEC
GIGDVVEIRECRPLSKTKSWTLVRVVEKAV

Ligand information

>3jbu 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: 3jbu Mechanisms of ribosome stalling by SecM at multiple elongation steps
• Resolution: 3.64 Å
• Binding residue (original residue number in PDB): K3 R5 K15 M16 K18 I32 K35 R39 T40 T41 K42 E62 R64 P65 S67 K68 K70 W72
• Binding residue (residue number reindexed from 1): K1 R3 K13 M14 K16 I30 K33 R37 T38 T39 K40 E60 R62 P63 S65 K66 K68 W70

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0046677 response to antibiotic

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:3jbu, PDBe:3jbu, PDBj:3jbu
• PDBsum: 3jbu
• PubMed: 26670735
• UniProt: P0AG63|RS17_ECOLI Small ribosomal subunit protein uS17 (Gene Name=rpsQ)