Structure of PDB 7bgd Chain t Binding Site BS01

Receptor Information

>7bgd Chain t (length=80) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

NIKSAIKRVKTTEKAEARNISQKSAMRTAVKNAKTAVSNNADNKNELVSL
AVKLVDKAAQSNLIHSNKADRIKSQLMTAN

Ligand information

>7bgd Chain a (length=1096)

cuggagaguuugauccuggcucaggaugaacgcuggcggcgugccuaaua
caugcaagucgagcgaacggacgagaagcuugcuucucugauguuagcgg
cggacgggugaguaacacguggauaaccuaccuauaagacugggauaacu
ucgggaaaccguagcuaauaccggauaauauuuugaaccgcaugguucaa
aagugaaagacggucuugcugucacuuauagauggauccgcgcugcauua
gcuaguugguaagguaacggcuuaccaaggcaacgaugcauagccgaccu
gagagggugaucggccacacuggaacugagacacgguccagacuccuacg
ggaggcagcaguagggaaucuuccgcaaugggcgaaagccugacggagca
acgccgcgugagugaugaaggucuucggaucguaaaacucuguuauuagg
gaagaacauauguguaaguaacugugcacaucuugacgguaccuaaucag
aaagccacggcuaacuacgugccagcagccgcgguaauacguagguggca
agcguuauccggaauuauugggcguaaagcgcgcguaggcgguuuuuuaa
gucugaugugaaagcccacggcucaaccguggagggucauuggaaacugg
aaaacuugagugcagaagaggaaaguggaauuccauguguagcggugaaa
ugcgcagagauauggaggaacaccaguggcgaaggcgacuuucuggucug
uaacugacgcugaugugcgaaagcguggggaucaaacaggauuagauacc
cugguaguccacgccguaaacgaugagugcuaaguguuaggggguuuccc
gccccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacg
accgcaagguugaaacucaaaggaauugacggggaccgucuuguacacac
cgcccgucacaccacgagaguuuguaacacccgaagccgguggaguaacc
uuuuaggagcuagccgucgaaggugggacaaaugauuggggugaagucgu
aacaagguagccguaucggaaggugcggcuggaucaccuccuuucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7bgd Stabilization of Ribosomal RNA of the Small Subunit by Spermidine in Staphylococcus aureus
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): N3 I4 K5 K9 R10 T14 A17 E18 N21 S23 S26 A27 R29 T30 K33 S51 K55 D58 K59 Q62 N64 H67 N69 K70 D72 R73 K75 S76 M79 T80
• Binding residue (residue number reindexed from 1): N1 I2 K3 K7 R8 T12 A15 E16 N19 S21 S24 A25 R27 T28 K31 S49 K53 D56 K57 Q60 N62 H65 N67 K68 D70 R71 K73 S74 M77 T78

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:7bgd, PDBe:7bgd, PDBj:7bgd
• PDBsum: 7bgd
• UniProt: Q2FXY6|RS20_STAA8 Small ribosomal subunit protein bS20 (Gene Name=rpsT)