Structure of PDB 1fka Chain D Binding Site BS01

Receptor Information

>1fka Chain D (length=161) Species: 274 (Thermus thermophilus)

RRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLE
SRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV
AEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPV
NEQLVIEFYSR

Ligand information

>1fka Chain A (length=1479)

uggagaguuugauccuggcucagggugaacgcuggcggcgugccuaagac
augcaagucgugcgggccgcgggguacuccguggucagcggcggacgggu
gaguaacgcgugggugaccuacccggaagagggggacaacccggggaaac
ucgggcuaaucccccauguggacccgccccuugggguguguccaaagggc
uuugcccgcuuccggaugggcccgcgucccaucagcuaguugguggggua
auggcccaccaaggcgacgacggguagccggucugagaggauggccggcc
acaggggcacugagacacgggccccacuccuacgggaggcagcaguuagg
aaucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaa
gaagcccuucgggguguaaacuccugaacccgggacgaaacccccgacga
ggggacugacgguaccgggguaauagcgccggccaacuccgugccagcag
ccgcgguaauacggagggcgcgagcguuacccgcguaaagggcguguagg
cggccuggggcgucccaugugaaagaccacggcucaaccgugggggagcg
ugggauacgcucaggcuagacggugggagagggugguggaauucccggag
uagcggugaaaugcgcagauaccgggaggaacgccgauggcgaaggcagc
caccugguccacccgugacgcugaggcgcgaaagcguggggagcaaaccg
gauuaacccggguaguccacgcccuaaacgaugcgcgcuaggucucuggg
ucuccugggggccgaagcuaacgcguuaagcgcgccgccuggggaguacg
gccgcaaggcugaaacucaaaggaauugacgggggcccgcacaagcggug
gagcaugugguuuaauucgcgaagaaccuuaccaggccuugacaugcuag
ggaacccgggugaaagccuggggugcccgcgagggagcccuagcacaggu
gcugggccgucgucagcucgugccgugagguguuggguuaagucccgcaa
cgagcgcaacccccgccguuaguugccagcgguucggccgggcacucuaa
cgggacugcccgcgaaagcgggaggaaggaggggacgacgucuggucagc
auggcccuuacggccugggcgacacacgugcuacaaugcccuacaaagcg
augccacccggcaacggggagcuaaucgcaaaaaggugggcccaguucgg
auuggggucugcaacccgaccccaugaagccggaaucgcuaguaaucgcg
gaucagccaugccgcggugaauacguucccgggccuuguacacaccgccc
gucacgccaugggagcgggcucuacccgaagucgccgggagccuacgggc
aggcgccgaggguagggcccgugacuggggcgaagucguaacaagguagc
uguaccggaaggugcggcuggaucaccuc

....<<<<<...((((>>>>>.<<<..<<<<<..<<<<<<...<.....<
...<..<<..<<<.<<<<<<<<<<..>>>>>>>>>>.>>>>>......<<
.......<<<<<<<...<<...<<<<<<<.<<<<<....<<<<<......
>>>>>.....>>>>>.....<<<.<<<<<....>>>>>.>>>....<<<<
...>>>>.>>>>>>>..>>.>>>>>>>.<<..<.<<<..<<<<<<<<.<.
...>>>>>>>>>>>>...>...>>..<<<<<<<......>>>...>>>>.
>>.<<<<<.<<.......>>>>>>>.<<<<....>>>>...>..>...>.
.....<<<....<<.<......>.>>..>>>....>>>>>>..<<<<...
...<<<<....>>>>.....>>>>....<<<<.<........<<<.....
>.>>..........>>>>>......<<<<<(((...<<<<<........)
)).........>>>>>>>>>>..>>>>>.>>><<.......<<<<...<<
<.<<<<<<.<<<<<<<<<<<......<<<<<<.....>>>>>>....>>>
>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<<<<<<..
<.<<<......>>>......>>>>>>>>...........<<....>>.>>
>>>>>..>>>>.>>>>...>>>...>>>>....<<<<.<<..<<..<<<<
<......>>>>.>.>>>>>>>>..........<<<<<<<.<<<<<<<<<<
...>>>>>>>>>>...............>>>>>>>.>>..<........<
<<<....>>>>.....>...))))....<<<.<<<<<......<<<<<..
.<<<<<<<<<<....................<<<<<<.......<.<<<<
<<..<<<<<<<....>>>>>>>...<........>..>>>>>>.>..<<.
.<...<.<..<....<<<<<<<<<....>>>..<<<<......>>>>..>
>>>>>.....<<<<.<<<<<<<...<<..<<<.....>>>>>....>>>>
>>>.....<<<<......>>>>........>>>>.....>....>>....
...>.>>.....>>>>>>...>>.>>>>>>>>.....<<<<.<<......
..<...<<<......>.>>..>.............>>>>>>.........
..<<<<<<<........>>>>>>>...........>>>>>....<<<<<<
<..........>>>>>>>.............>>>>>>>>..........<
<.<.<<<..<.<<.<<<<<<<<<<<<....<.<<<......<<<..>>>.
..>>>.>...>>>>>>>>>>>>..>>>..>>>..>.>>.........<<<
<<<<<<....>>>>>>>>>..........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1fka Structure of functionally activated small ribosomal subunit at 3.3 angstroms resolution.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): Y54 K84 R115 S137 Y138 S208
• Binding residue (residue number reindexed from 1): Y6 K36 R67 S89 Y90 S160

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

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

External links

• PDB: RCSB:1fka, PDBe:1fka, PDBj:1fka
• PDBsum: 1fka
• PubMed: 11007480
• UniProt: P80373|RS4_THET8 Small ribosomal subunit protein uS4 (Gene Name=rpsD)