Structure of PDB 6spf Chain J Binding Site BS01

Receptor Information

>6spf Chain J (length=141) Species: 287 (Pseudomonas aeruginosa)

KTYTAKPETVQRDWFVVDAAGQTLGRLATEIARRLRGKHKPEYTPHVDTG
DYIVVINAEQVRVTGAKTTDKMYYHHSGFPGGIKSINFEKLIAKAPERVI
ETAVKGMLPKNPLGRDMYRKLKVYKGASHPHTAQQPQELKI

Ligand information

>6spf Chain A (length=2885)

gucaagugaagaagcgcauacgguggaugccuuggcagucagaggcgaug
aaagacgugguagccugcgaaaagcuucggggagucggcaaacagacuuu
gauccggagaucucugaaugggggaacccaccuaggauaaccuagguauc
uuguacugaauccauaggugcaagaggcgaaccaggggaacugaaacauc
uaaguacccugaggaaaagaaaucaaccgagauucccuuaguaguggcga
gcgaacggggauuagcccuuaagcuucauugauuuuagcggaacgcucug
gaaagugcggccauagugggugauagccccguacgcgaaaggaucuuuga
agugaaaucaaguaggacggagcacgagaaacuuugucugaacauggggg
gaccauccuccaaggcuaaauacuacugacugaccgauagugaaccagua
ccgugagggaaaggcgaaaagaaccccggagaggggagugaaauagaacc
ugaaaccguaugcguacaagcagugggagccuacuuguuaggugacugcg
uaccuuuuguauaaugggucagcgacuuauauucaguggcaagcuuaacc
guauaggguaggcguagcgaaagcgagucuuaauagggcguuuagucgcu
ggguauagacccgaaaccgggcgaucuauccaugagcagguugaagguua
gguaacacugacuggaggaccgaacccacucccguugaaaagguagggga
ugacuuguggaucggagugaaaggcuaaucaagcucggagauagcugguu
cuccucgaaagcuauuuagguagcgccucauguaucacucugggggguag
agcacuguuucggcuagggggucaucccgacuuaccaaaccgaugcaaac
uccgaauacccagaagugccgagcaugggagacacacggcgggugcuaac
guccgucgugaaaagggaaacaacccagaccgccagcuaaggucccaaag
uugugguuaagugguaaacgaugugggaaggcuuagacagcuaggagguu
ggcuuagaagcagccacccuuuaaagaaagcguaauagcucacuagucga
gucggccugcgcggaagauguaacggggcucaaaccacacaccgaagcug
cgggugucacguaagugacgcgguagaggagcguucuguaagccugugaa
ggugaguugagaagcuugcuggagguaucagaagugcgaaugcugacaug
aguaacgacaaugggugugaaaaacacccacgccgaaagaccaaggguuc
cugcgcaacguuaaucgacgcaggguuagucgguuccuaaggcgaggcug
aaaagcguagucgaugggaaacagguuaauauuccuguacuucugguuac
ugcgauggagggacggagaaggcuaggccagcuuggcguugguuguccaa
guuuaaggugguaggcugaaaucuuagguaaauccgggguuucaaggccg
agagcugaugacgagucgucuagaugacgaagugguugaugccaugcuuc
caagaaaagcuucuaagcuucagguaaccaggaaccguaccccaaaccga
cacagguggucggguagagaauaccaaggcgcuugagagaacucggguga
aggaacuaggcaaaauggcaccguaacuucgggagaaggugcgccggcua
gggugaaggauuuacuccguaagcucuggcuggucgaagauaccaggccg
cugcgacuguuuauuaaaaacacagcacucugcaaacacgaaaguggacg
uauagggugugacgccugcccggugccggaagguuaauugaugggguuag
cgcaagcgaagcucuugaucgaagccccgguaaacggcggccguaacuau
aacgguccuaagguagcgaaauuccuugucggguaaguuccgaccugcac
gaauggcguaacgauggcggcgcugucuccacccgagacucagugaaauu
gaaaucgcugugaagaugcaguguauccgcggcuagacggaaagaccccg
ugaaccuuuacuguagcuuugcacuggacuuugagccugcuuguguagga
uaggugggaggcuuugaagcguggacgccaguucgcguggagccauccuu
gaaauaccacccuggcaugcuugagguucuaacucugguccguaauccgg
aucgaggacaguguauggugggcaguuugacuggggcggucuccuccuaa
agaguaacggaggaguacgaaggugcgcucagaccggucggaaaucgguc
gcagaguauaaaggcaaaagcgcgcuugacugcgagacagacacgucgag
cagguacgaaaguaggucuuagugauccggugguucuguauggaagggcc
aucgcucaacggauaaaagguacuccggggauaacaggcugauaccgccc
aagaguucauaucgacggcgguguuuggcaccucgaugucggcucaucac
auccuggggcugaagccggucccaaggguauggcuguucgccauuuaaag
ugguacgcgagcuggguuuagaacgucgugagacaguucggucccuaucu
gccguggacguuugagauuugagaggggcugcuccuaguacgagaggacc
ggaguggacgaaccucugguguuccgguugucacgccaguggcauugccg
gguagcuauguucggaaaagauaaccgcugaaagcaucuaagcgggaaac
uugccucaagaugagaucucacugggaacuugauuccccugaagggccgu
cgaagacuacgacguugauaggcuggguguguaagcguugugaggcguug
agcuaaccaguacuaauggcccgugaggcuugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6spf Structure ofPseudomonas aeruginosaribosomes from an aminoglycoside-resistant clinical isolate.
• Resolution: 2.89 Å
• Binding residue (original residue number in PDB): T3 T5 K7 E9 W15 T24 G26 R27 T30 R37 K39 H47 T65 G66 K68 K72 Y75 H76 H77 S78 F80 P81 G82 I84 K85 R99 E102 A104 G107 M108 N112 P113 L114 R116 Y119 R120 P131 H132 A134 Q135 Q136
• Binding residue (residue number reindexed from 1): T2 T4 K6 E8 W14 T23 G25 R26 T29 R36 K38 H46 T64 G65 K67 K71 Y74 H75 H76 S77 F79 P80 G81 I83 K84 R98 E101 A103 G106 M107 N111 P112 L113 R115 Y118 R119 P130 H131 A133 Q134 Q135

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0017148 negative regulation of translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6spf, PDBe:6spf, PDBj:6spf
• PDBsum: 6spf
• PubMed: 31611393
• UniProt: A0A071L356