Structure of PDB 6spd Chain L Binding Site BS01

Receptor Information

>6spd Chain L (length=143) Species: 287 (Pseudomonas aeruginosa)

QLNDLRSAPGARREKHRPGRGIGSGLGKTGGRGHKGLTSRSGGKVAPGFE
GGQQPLHRRLPKFGFVSLKAMDRAEVRTSELAKVEGDVVSLQTLKDANLI
NQHVQRVKVMLSGEVGRAVTLKGIAATKGARAAIEAAGGKFED

Ligand information

>6spd Chain A (length=2851)

gucaagugaagaagcgcauacgguggaugccuuggcagucagaggcgaug
aaagacgugguagccugcgaaaagcuucggggagucggcaaacagacuuu
gauccggagaucucugaaugggggaacccaccuaggauaaccuagguauc
uuguacugaauccauaggugcaagaggcgaaccaggggaacugaaacauc
uaaguacccugaggaaaagaaaucaaccgagauucccuuaguaguggcga
gcgaacggggauuagcccuuaagcuauuuuagcggaacgcucuggaaagu
gcggccauagugggugauagccccguacgcgaaaggaucuuugaagugaa
aucaaguaggacggagcacgagaaacuuugucugaacauggggggaccau
ccuccaaggcuaaauacuacugacugaccgauagugaaccaguaccguga
gggaaaggcgaaaagaaccccggagaggggagugaaauagaccugaaacc
guaugcguacaagcagugggagccuacuuguuaggugacugcguaccuuu
uguauaaugggucagcgacuuauauucaguggcaagcuuaaccguauagg
guaggcguagcgaaagcgagucuuaauagggcguagucgcuggguauaga
cccgaaaccgggcgaucuauccaugagcagguugaagguuagguaacacu
gacuggaggaccgaacccacucccguugaaaagguaggggaugacuugug
gaucggagugaaaggcuaaucaagcucggagauagcugguucuccucgaa
agcuauuuagguagcgccucauguaucacucugggggguagagcacuguu
ucggcuagggggucaucccgacuuaccaaaccgaugcaaacuccgaauac
ccagaagugagcaugggagacacacggcgggugcuaacguccgucgugaa
aagggaaacaacccagaccgccagcuaaggucccaaaguugugguuaagu
gguaaacgaugugggaaggcuuagacagcuaggagguuggcuuagaagca
gccacccuuuaaagaaagcguaauagcucacuagucgagucggccugcgc
ggaagauguaacggggcaaccacacaccgaagcugcgggugucacguaag
ugacgcgguagaggagcguucuguaagccugugaaggugaguugagaagc
uugcuggagguaucagaagugcgaaugcugacaugaguaacgacaauggg
ugugaaaaacacccacgccgaaagaccaaggguuccugcgcaacguuaau
cgacgcaggguuagucgguuccuaaggcgaggcugaaaagcguagucgau
gggaaacagguuaauauuccuguacuucugguuacugcgauggagggacg
gagaaggcuaggccagcuuggcguugguuguccaaguuuaaggugguagg
cugaaaucuuagguaaauccgggguuucaaggccgagagcugaugacgag
ucguagaugacgaagugguugaugccaugcuuccaagaaaagcuucuaag
cuucagguaaccaggaaccguaccccaaaccgacacagguggucggguag
agaauaccaaggcgcuugagagaacucgggugaaggaacuaggcaaaaug
gcaccguaacuucgggagaaggugcgccggcuagugaaaagcucuggcug
gucgaagauaccaggccgcugcgacuguuuauuaaaaacacagcacucug
caaacacgaaaguggacguauagggugugacgccugcccggugccggaag
guuaauugaugggguuagcgcaagcgaagcucuugaucgaagccccggua
aacggcggccguaacuauaacgguccuaagguagcgaaauuccuugucgg
guaaguuccgaccugcacgaauggcguaacgauggcggcgcugucuccac
ccgagacucagugaaauugaaaucgcugugaagaugcaguguauccgcgg
cuagacggaaagaccccgugaaccuuuacuguagcuuugcacuggacuuu
gagccugcuuguguaggauaggugggaggcuuugaagcguggacgccagu
ucgcguggagccauccuugaaauaccacccuggcaugcuugagguucuaa
cucugguccguaauccggaucgaggacaguguauggugggcaguuugacu
ggggcggucuccuccuaaagaguaacggaggaguacgaaggugcgcucag
accggucggaaaucggucgcagaguauaaaggcaaaagcgcgcuugacug
cgagacagacacgucgagcagguacgaaaguaggucuuagugauccggug
guucuguauggaagggccaucgcucaacggauaaaagguacuccggggau
aacaggcugauaccgcccaagaguucauaucgacggcgguguuuggcacc
ucgaugucggcucaucacauccuggggcugaagccggucccaaggguaug
gcuguucgccauuuaaagugguacgcgagcuggguuuagaacgucgugag
acaguucggucccuaucugccguggacguuugagauuugagaggggcugc
uccuaguacgagaggaccggaguggacgaaccucuggguuccgguuguca
cgccaguggcauugccggguagcuauguucggaaaagauaaccgcugaaa
gcaucuaagcgggaaacuugccucaagaugagaucucacugggaacuuga
uuccccugaagggccgucgaagacuacgacguugauaggcugggugugua
agcguugugaggcguugagcuaaccaguacuaaugcccgugaggcuugac
c

<<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<....
..<<<<<<....(((.>>>.....<<<<<<<...<.))).....>.....
..>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<<
<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<......>
......>>>>>.>.........<<....>>...<<<<<.....<<.....
>>....>>>>>...(((........<<<<..<<<...<<<.<......>.
>>>((......<<<.....))>>>...>>>....>>>>............
........<<<<<<<<.........>>>>>>>>......<<<<<..<<<<
>>>>>..)))......]].>>>>>>>.]]...............<<....
>>....]].........<<<<.....>>>>............}....>>>
>>>>>>>>.......<<<<..<<<<<.....>>>>>..>>>>...<.<..
......>.>.<<<<<<....<<<<<<<<<<<<<..<<<...<<.....>>
...>>>...<<....>>..<<<<<...>>>>>...>>>>>>>>>>>>>..
<<.<...<<<<<<.....<<<<<<<<<..<<<....<<<<<<......>>
>>>>.....>>>...<<<.<<.<<........>>.>>>>>....>>>>>>
>>>...<<<.....>>>......>>>>>>......>.>>..<<<<<<...
.<<<<<....>>>>>.<<<<<<<<.....<<<<<<.....<<<...<<<.
<<<<...<..<<<.......>>>...>...>>>>.>>>..>>.>.....>
>>>>..>...>>>>>>>.>...<<<<<<<<<<......>>>>>>>>>>..
..<<<......>>>...<<<<.<<<...<<<(((.....<<<<<<.....
......<<..<<<<<..<<........<<<<<..<...<<<.........
>>>...>.........<<<......>>>..>>>>>....>>..>>>>>.>
>...........)))...>>>>>>.>>>...>>>>>>><<<<<<......
>>>>>>....>>>>>><.<<<<<...<<<......<<<<<<<<....>>>
>>>>>...>>>..>>>>>..>.....>>>>>><......<<.....<<<<
<<.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....
>>.>>>>>>....((<<<<<<<...<<<...<<<....>>>...>>>...
>>>..<<<<<........>>>>>))<<<<<<<<<<<.<...<<<<....<
<<<..<<<..<<<<<<<<<<<....(((...>>>>>><<..<<<....<<
<.<<<<<<<..<<.....>>.>>>>>>>...>>>....>>>...>><..<
<<<....>>>>...>>>>>>...>>>...>>>.>........>>>>...>
.....>>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<.
....>>>>..>>>>..<<<<....<<<<<<<<.<<...............
<<<<<....<<..>>.....>>>>><<<<<<..<<.....>>....>>>>
>>............<<<<<<<<<..<<<.........>>>..<<<<<<<.
....<<<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<
<<........<<<<<<.<<....>>..>>>>>>........>>>>>>>>.
.>>>>><<<<<.........>>>>>........<...........<<<<<
.......>>>>>.....>....>>>>>..>>.>>>>>>>.....>>.>>>
>>>>>.>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<
<.(((.[[......<<<<.[[<<<<..<<<<<.<<<.<<<<<.<<<<<<<
<<<<.<<<<...........<<<<<...........<.<.<<<<....>>
>>.>.>..................>>>>>..>>>>.>>>>>>>>>>>...
<<<.<<<<<<.....>>>>>>>>>....>>>>>.>>>..>>>>>..<<<<
.....>>>><<<<<<...........>>>>>>..<<...<<<<<<<...<
<<<<<.......>>>>>>.....<<.[.(((>>....>>>>>>>...<<<
<..<<<......>>>..>>>>.<<<....>>>.>>)))]......<<<<<
<<.((..>>>>..))>>>>>>>.............>>>>..]]>>>>...
....<<<<...<<<<<<...<<.......>>...>>>>>>....>>>.>.
......<<<<<.<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<
<<.....>>>>>.....>>>>>..>...>>>.>>....<<<<<<<....>
>>.>>>>....]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<<
<<<...............>>>>>>>.<<<<<...<<<...<<<<<<<<<<
.)))..>>>>>..>>>>>....>>>.>>>>>...<<<.<..<<<<<....
.......>>>>>...>>>>.>>>>.......>>>>>>>..<<<<<.....
>>>>>.....<<<<<<<<<.......>>>>>....<<<<<<<<..<<...
..<<<......>>>....>>...>>>>>.>>>..>>>>.....>>>>>>>
.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6spd Structure ofPseudomonas aeruginosaribosomes from an aminoglycoside-resistant clinical isolate.
• Resolution: 3.28 Å
• Binding residue (original residue number in PDB): L3 N4 R7 G11 R13 R14 R18 P19 G20 R21 G22 G24 K29 G32 R33 G34 K36 L38 R41 S42 G43 K45 F50 E51 G52 G53 Q54 R60 P62 K63 F64 F66 K70 R78 E81 N99 Q103 R107 K109 M111 L112 T128 K129
• Binding residue (residue number reindexed from 1): L2 N3 R6 G10 R12 R13 R17 P18 G19 R20 G21 G23 K28 G31 R32 G33 K35 L37 R40 S41 G42 K44 F49 E50 G51 G52 Q53 R59 P61 K62 F63 F65 K69 R77 E80 N98 Q102 R106 K108 M110 L111 T127 K128

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6spd, PDBe:6spd, PDBj:6spd
• PDBsum: 6spd
• PubMed: 31611393
• UniProt: A0A2V3D5Z8