Structure of PDB 6v3a Chain Z Binding Site BS01

Receptor Information

>6v3a Chain Z (length=55) Species: 480119 (Acinetobacter baumannii AB0057)

AVQQNRKSRSRRDMRRSHDALTENALTVDQATGETHRRHHVTKDGFYRGR
QLFAK

Ligand information

>6v3a Chain AN1 (length=2892)

agucaaguaauuaagugcaugugguggaugccuuggcagucagaggcgau
gaaagacgugauagccugcgaaaagcuccggggaggcggcaaauauccuu
ugauccggagaugucugaaugggggaacccaccuacuuuaagguagguau
ugcaacaugaauacauaguguugcaaggcgaacgaggggaagugaaacau
cucaguacccuuaggaaaagaaaucaauugagauucccucaguagcggcg
agcgaacggggaucagcccauuaaguuauguguguuuuaguggaacgcuc
ugggaagugcgaacguagagggugauauucccguacacgaaagggcacac
auaaugaugacgaguagggcgaggcacgugaaaccuugucugaauauggg
gggaccauccuccaaggcuaaauacuccugacugaccgauagugaaccag
uaccgugagggaaaggcgaaaagaaccccugugaggggagugaaauagau
ccugaaaccgcaugcauacaagcagugggagcaccuucguggugugacug
cguaccuuuuguauaaugggucagcgacuuauauucaguagcgagguuaa
ccguauaggggagccguagagaaaucgagucuuaauagggcguuuaguug
cuggguauagacccgaaaccaggcgaucuauccaugagcagguugaaggu
uggguaacacuaacuggaggaccgaacccacugucguugaaaagccaggg
gaugacuuguggauaggggugaaaggcuaaucaagccuggugauagcugg
uucuccccgaaagcuauuuagguagcgccucggacgaauaccauaggggg
uagagcacuguuucggcuagggggucaucccgacuuaccaaaccgaugca
aacuccgaauaccuaugaguacuauccgggagacagacugcgggugcuaa
cguccguagucaagaggaaaacaauccagaccgccagcuaaggccccaaa
aucauaguuaagugggaaacgaugugggaaggcauagacagcuaggaggu
uggcuuagaagcagccacccuuuaaagaaagcguaauagcucacuagucg
agucggccugcgcggaagauguaacggggcuaaaacuaugugccgaagcu
gcggauguauacuuuguauacgugguaggggagcguucuguaagccgaug
aagguguguugagaagcaugcuggagguaucagaagugcgaaugcugacg
ugaguaacgacaaaacgggugaaaaacccguucgccgaaagaccaagggu
uccaguccaacguuaaucggggcugggugagucgaccccuaaggcgaggc
cgaaaggcguagucgaugggaaaaugguuaauauuccauuacuucugugu
aaugcgaugagaggacggagaaggcuaaaucagccuggcguugguugucc
aggugaaaggauguaggcauguaucuuaggcaaauccgggguacucuaug
cugagaucugauagcaagcuguacuuguacagcgaagugguugaugccau
gcuuccaggaaaagucucuaagcuucaguuacacaggaaucguacccgaa
accgacacagguggucaggucgaguagaccaaggcgcuugagagaacucu
gcugaaggaacuaggcaaaaugguaccguaacuucgggagaagguacgcu
guuguuggugauggaacucgcuuccugagcugacgacagccgcagaaacc
aggccgcugcaacuguuuauuaaaaacauagcacucugcaaacacgaaag
uggacguauagggugugaugccugcccggugcuggaagguuaauugaugg
gguuagcguaagcgaagcucuugaucgaagccccaguaaacggcggccgu
aacuauaacgguccuaagguagcgaaauuccuugucggguaaguuccgac
cugcacgaauggcauaaugauggcggcgcugucuccagcagaggcucagu
gaaaucgaaaucgcugugaagaugcaguguacccgcggcuagacggaaag
accccgugaaccuuuacugcagcuugacacugaacuuugaccuuacuugu
guaggauaggugggaggcuuugaagcuggaacgcuaguuccaguggagcc
guccuugaaauaccacccugguaauguugagguucuaacucugucccgug
auccgggacgaggaccgugucugguggguaguuugacuggggcggucucc
uccuaaagaguaacggaggaguacgaaggugcgcucagcguggucggaaa
ucacgcguagaguauaaaggcaaaagcgcgcuuaacugcgagacccacaa
gucgagcagguacgaaaguaggucuuagugauccggugguucuguaugga
agggccaucgcucaacggauaaaagguacucuggggauaacaggcugaua
ccgcccaagaguucauaucgacggcgguguuuggcaccucgaugucggcu
caucucauccuggggcugaagcaggucccaaggguauggcuguucgccau
uuaaagagguacgcgagcuggguuuagaacgucgugagacaguucggucc
cuaucuaccgugggcgcuggaaauuugagaggaucugcuccuaguacgag
aggaccagaguggacgaaccucugguguaccgguugugacgccagucgca
ucgccggguagcuauguucggaagggauaaccgcugaaagcaucuaagcg
ggaagccuaccucaagauaagauuucccuaggacuuuauguccucuaaag
agccguucgagacuaggacguugauagguuggauguggaagcauagugau
augugaagcugaccaauacuaauugcucgugaggcuugacua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6v3a Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.
• Resolution: 2.82 Å
• Binding residue (original residue number in PDB): A2 V3 Q4 Q5 N6 R7 K8 S9 R10 S11 R13 D14 M15 R16 R17 S18 H19 T28 Q31 R39 H40 Y48 R49
• Binding residue (residue number reindexed from 1): A1 V2 Q3 Q4 N5 R6 K7 S8 R9 S10 R12 D13 M14 R15 R16 S17 H18 T27 Q30 R38 H39 Y47 R48

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6v3a, PDBe:6v3a, PDBj:6v3a
• PDBsum: 6v3a
• PubMed: 31964740
• UniProt: B7I7A4|RL32_ACIB5 Large ribosomal subunit protein bL32 (Gene Name=rpmF)