Structure of PDB 4v6q Chain AL Binding Site BS01

Receptor Information

>4v6q Chain AL (length=129) Species: 562 (Escherichia coli)

AENQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMVVRQP
LELVDMVEKLDLYITVKGGGISGQAGAIRHGITRALMEYDESLRSELRKA
GFVTRDARQVERKKVGLRKARRRPQFSKR

Ligand information

>4v6q Chain AA (length=1542)

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
ucguggaucagaaugccacggugaauacguucccgggccuuguacacacc
gcccgucacaccaugggaguggguugcaaaagaaguagguagcuuaaccu
ucgggagggcgcuuaccacuuugugauucaugacuggggugaagucguaa
caagguaaccguaggggaaccugcgguuggaucaccuccuua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v6q Structural characterization of mRNA-tRNA translocation intermediates.
• Resolution: 11.5 Å
• Binding residue (original residue number in PDB): Q4 Y6 R10 K12 A15 R17 F19 N30 Q31 R32 R40 E41 Y63 K67 G68 G69 G70 I71 G73 Q74 R84 R98 T104 R105 R108 Q109 V110 E111 R112 K113 K114 L117 R118 K119 R121 R122 R123 Q125 F126 K128 R129
• Binding residue (residue number reindexed from 1): Q4 Y6 R10 K12 A15 R17 F19 N30 Q31 R32 R40 E41 Y63 K67 G68 G69 G70 I71 G73 Q74 R84 R98 T104 R105 R108 Q109 V110 E111 R112 K113 K114 L117 R118 K119 R121 R122 R123 Q125 F126 K128 R129

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

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:4v6q, PDBe:4v6q, PDBj:4v6q
• PDBsum: 4v6q
• PubMed: 22467828
• UniProt: P0A7X3|RS9_ECOLI Small ribosomal subunit protein uS9 (Gene Name=rpsI)