Structure of PDB 8k3o Chain H Binding Site BS01

Receptor Information

>8k3o Chain H (length=129) Species: 83333 (Escherichia coli K-12)

SMQDPIADMLTRIRNGQAANKAAVTMPSSKLKVAIANVLKEEGFIEDFKV
EGDTKPELELTLKYFQGKAVVESIQRVSRPGLRIYKRKDELPKVMAGLGI
AVVSTSKGVMTDRAARQAGLGGEIICYVA

Ligand information

>8k3o Chain A (length=1426)

aaauugaagaguuugaucauggcucagauugaacgcuggcggcaggccua
acacaugcaagucgaacgguaacaggaagaagcuugcuucuuugcugacg
aguggcggacgggugaguaaugucugggaaacugccugauggagggggau
aacuacuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagag
ggggaccuucgggccucuugccaucggaugugcccagaugggauuagcua
guaggugggguaacggcucaccuaggcgacgaucccuagcuggucugaga
ggaugaccagccacacuggaacugagacacgguccagacuccuacgggag
gcagcaguggggaauauugcacaaugggcgcaagccugaugcagccaugc
cgcguguaugaagaaggccuucggguuguaaaguacuuucagcggggagg
aagggaguaaaguuaauaccuuugcucauugacguuacccgcagaagaag
caccggcuaacuccgugccagcagccgcgguaauacggagggugcaagcg
uuaaucggaauuacugggcguaaagcgcacgcaggcgguuuguuaaguca
gaugugaaauccccgggcucaaccugggaacugcaucugauacuggcaag
cuugagucucguagagggggguagaauuccagguguagcggugaaaugcg
uagagaucuggaggaauaccgguggcgaaggcggcccccuggacgaagac
ugacgcucaggugcgaaagcguggggagcaaacaggauuagauacccugg
uaguccacgccguaaacgaugucgacuuggagguugugcccuugaggcgu
ggcuuccggagcuaacgcguuaagucgaccgccuggggaguacggccgca
agguuaaaacucaaaugaauugacgggggcccgcacaagcgguggagcau
gugguuuaauucgaugcaacgcgaagaaccuuaccuggucuugacaucca
cggaaguuuucagagaugagaaugugccuucgggaaccgugagacaggug
cugcauggcugucgucagcucguguugugaaauguuggguuaagucccgc
aacgagcgcaacccuuauccuuuguugccagcgguccggccgggaacuca
aaggagacugccagugauaaacuggaggaagguggggaugacgucaaguc
aucauggcccuuacgaccagggcuacacacgugcuacaauggcgcauaca
aagagaagcgaccucgcgagagcaagcggaccucauaaagugcgucguag
uccggauuggagucugcaacucgacuccaugaagucggaaucgcuaguaa
ucguggaucagaaugccacggugaauacguucccgggccugguaaccgua
ggggaaccugcgguuggaucaccucc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8k3o Cryo-EM structure of 30S ribosome with cleaved AP-mRNA bound complex I
• Resolution: 3.88 Å
• Binding residue (original residue number in PDB): S2 Q4 D5 D9 T12 R13 R15 N16 S30 K31 K56 R80 P81 G82 Y86 R88 K89 S105 T106 S107 K108 G109 G120 E124
• Binding residue (residue number reindexed from 1): S1 Q3 D4 D8 T11 R12 R14 N15 S29 K30 K55 R79 P80 G81 Y85 R87 K88 S104 T105 S106 K107 G108 G119 E123

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006417 regulation of translation
• GO:0043488 regulation of mRNA stability

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8k3o, PDBe:8k3o, PDBj:8k3o
• PDBsum: 8k3o
• UniProt: P0A7W7|RS8_ECOLI Small ribosomal subunit protein uS8 (Gene Name=rpsH)