Structure of PDB 6v3a Chain e Binding Site BS01

Receptor Information

>6v3a Chain e (length=155) Species: 480119 (Acinetobacter baumannii AB0057)

LVEKLVAVDRVAKVVKGGRIFSFTALTVVGDGNGRVGFGRGKAREVPAAI
SKALEAARRNMITVDLAGTTLQHPVNARHGASRVYMQPASEGTGVIAGGA
MRAVLEAAGVHNVLAKCYGSTNAANVVNATFKGLRDMTSPEKVAAKRGKS
VEEIQ

Ligand information

>6v3a Chain sN1 (length=1528)

uaacugaagaguuugaucauggcucagauugaacgcuggcggcaggcuua
acacaugcaagucgagcgggggaagguagcuugcuaccggaccuagcggc
ggacgggugaguaaugcuuaggaaucugccuauuagugggggacaacauc
ucgaaagggaugcuaauaccgcauacguccuacgggagaaagcaggggau
cuucggaccuugcgcuaauagaugagccuaagucggauuagcuaguuggu
gggguaaaggccuaccaaggcgacgaucuguagcgggucugagaggauga
uccgccacacugggacugagacacggcccagacuccuacgggaggcagca
guggggaauauuggacaauggggggaacccugauccagccaugccgcgug
ugugaagaaggccuuaugguuguaaagcacuuuaagcgaggaggaggcua
cucuaguuaauaccuagggauaguggacguuacucgcagaauaagcaccg
gcuaacucugugccagcagccgcgguaauacagagggugcgagcguuaau
cggauuuacugggcguaaagcgugcguaggcggcuuauuaagucggaugu
gaaauccccgagcuuaacuugggaauugcauucgauacuggugagcuaga
guaugggagaggaugguagaauuccagguguagcggugaaaugcguagag
aucuggaggaauaccgauggcgaaggcagccaucuggccuaauacugacg
cugagguacgaaagcauggggagcaaacaggauuagauacccugguaguc
caugccguaaacgaugucuacuagccguuggggccuuugaggcuuuagug
gcgcagcuaacgcgauaaguagaccgccuggggaguacggucgcaagacu
aaaacucaaaugaauugacgggggcccgcacaagcgguggagcauguggu
uuaauucgaugcaacgcgaagaaccuuaccuggccuugacauacuagaaa
cuuuccagagauggauuggugccuucgggaaucuagauacaggugcugca
uggcugucgucagcucgugucgugagauguuggguuaagucccgcaacga
gcgcaacccuuuuccuuacuugccagcauuucggaugggaacuuuaagga
uacugccagugacaaacuggaggaaggcggggacgacgucaagucaucau
ggcccuuacggccagggcuacacacgugcuacaauggucgguacaaaggg
uugcuacacagcgaugugaugcuaaucucaaaaagccgaucguaguccgg
auuggagucugcaacucgacuccaugaagucggaaucgcuaguaaucgcg
gaucagaaugccgcggugaauacguucccgggccuuguacacaccgcccg
ucacaccaugggaguuuguugcaccagaaguagcuagccuaacugcaaag
agggcgguuaccacgguguggccgaugacuggggugaagucguaacaagg
uagccguaggggaaccugcggcuggauc

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

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): V20 A21 K22 V23 K25 R28 R49 K51 R53 R87 A90 Y94 S99 I105 A106 L123 K125 C126 Y127 S129
• Binding residue (residue number reindexed from 1): V11 A12 K13 V14 K16 R19 R40 K42 R44 R78 A81 Y85 S90 I96 A97 L114 K116 C117 Y118 S120

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6v3a, PDBe:6v3a, PDBj:6v3a
• PDBsum: 6v3a
• PubMed: 31964740
• UniProt: B7IA22|RS5_ACIB5 Small ribosomal subunit protein uS5 (Gene Name=rpsE)