Structure of PDB 6fkr Chain 2t Binding Site BS01

Receptor Information

>6fkr Chain 2t (length=96) Species: 300852 (Thermus thermophilus HB8)

RNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMR
KAESLIDKAAKGSTLHKNAAARRKSRLMRKVRQLLEAAGAPLIGGG

Ligand information

>6fkr Chain 2a (length=1500)

uuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaaga
caugcaagucgugcgggccgcggguccguggucagcggcggacgggugag
uaacgcgugggugaccuacccggaagagggggacaacccggggaaacucg
ggcuaaucccccauguggacccgccccuugggguguguccaaagggcuuu
gcccgcuuccggaugggcccgcgucccaucagcuaguuggugggguaaug
gcccaccaaggcgacgacggguagccggucugagaggauggccggccaca
ggggcacugagacacgggccccacuccuacgggaggcagcaguuaggaau
cuuccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaagaa
gcccuucgggguguaaacuccugaacccgggacgaaacccccgacgaggg
gacugacgguaccgggguaauagcgccggccaacuccgugccagcagccg
cgguaauacggagggcgcgagcguuacccggauucacugggcguaaaggg
cguguaggcggccuggggcgucccaugugaaagaccacggcucaaccgug
ggggagcgugggauacgcucaggcuagacggugggagagggugguggaau
ucccggaguagcggugaaaugcgcagauaccgggaggaacgccgauggcg
aaggcagccaccugguccacccgugacgcugaggcgcgaaagcgugggga
gcaaaccggauuagauacccggguaguccacgcccuaaacgaugcgcgcu
aggucucugggucuccugggggccgaagcuaacgcguuaagcgcgccgcc
uggggaguacggccgcaaggcugaaacucaaaggaauugacgggggcccg
cacaagcgguggagcaugugguuuaauucgaagcaacgcgaagaaccuua
ccaggccuugacaugcuagggaacccgggugaaagccuggggugccccgc
gaggggagcccuagcacaggugcugcauggccgucgucagcucgugccgu
gagguguuggguuaagucccgcaacgagcgcaacccccgccguuaguugc
cagcgguucggccgggcacucuaacgggacugcccgcgaaagcgggagga
aggaggggacgacgucuggucagcauggcccuuacggccugggcgacaca
cgugcuacaaugcccacuacaaagcgaugccacccggcaacggggagcua
aucgcaaaaaggugggcccaguucggauuggggucugcaacccgacccca
ugaagccggaaucgcuaguaaucgcggaucagccaugccgcggugaauac
guucccgggccuuguacacaccgcccgucacgccaugggagcgggcucua
cccgaagucgccgggagccuacgggcaggcgccgaggguagggcccguga
cuggggcgaagucguaacaagguagcuguaccggaaggugcggcuggauc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6fkr The Dolphin Proline-Rich Antimicrobial Peptide Tur1A Inhibits Protein Synthesis by Targeting the Bacterial Ribosome.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): L10 K14 R15 H16 R17 S19 K21 R22 R23 N26 A28 K29 S31 K34 T35 K38 K39 E51 K54 E60 S61 D64 K65 K68 S70 H73 K74 N75 A78 R79 K81 S82 R83 M85 R86 R89 G101 G102 G103
• Binding residue (residue number reindexed from 1): L3 K7 R8 H9 R10 S12 K14 R15 R16 N19 A21 K22 S24 K27 T28 K31 K32 E44 K47 E53 S54 D57 K58 K61 S63 H66 K67 N68 A71 R72 K74 S75 R76 M78 R79 R82 G94 G95 G96

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6fkr, PDBe:6fkr, PDBj:6fkr
• PDBsum: 6fkr
• PubMed: 29526712
• UniProt: P80380|RS20_THET8 Small ribosomal subunit protein bS20 (Gene Name=rpsT)