Structure of PDB 6spf Chain N Binding Site BS01

Receptor Information

>6spf Chain N (length=120) Species: 287 (Pseudomonas aeruginosa)

MRHRKSGRHLSRTSAHRKAMFQNMAVSLFEHELIKTTLPKAKELRRVAEP
LITLAKEDSVANRRLAFDRTRSKAAVGKLFNDLGKRYANRPGGYLRILKC
GFRAGDNAPMAYVELVDRPV

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): M1 R2 H3 R4 K5 S6 R8 H9 L10 S11 R12 S14 H16 A19 M20 N23 S27 H31 I34 K35 T36 T37 P39 K42 R45 R46 E49 P50 T53 R63 R64 F67 D68 R71 K73 R90 P91 G92 G93 R96 K99 R103 G105 D106 N107 A108
• Binding residue (residue number reindexed from 1): M1 R2 H3 R4 K5 S6 R8 H9 L10 S11 R12 S14 H16 A19 M20 N23 S27 H31 I34 K35 T36 T37 P39 K42 R45 R46 E49 P50 T53 R63 R64 F67 D68 R71 K73 R90 P91 G92 G93 R96 K99 R103 G105 D106 N107 A108

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• 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: A0A072ZCA1