Structure of PDB 4v65 Chain AJ Binding Site BS01

Receptor Information

>4v65 Chain AJ (length=80) Species: 562 (Escherichia coli)

KIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNEC
GIGDVVEIRECRPLSKTKSWTLVRVVEKAV

Ligand information

>4v65 Chain A1 (length=1530)

ugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaacac
augcaagucgaacgguaacaggaagaagcuugcuucuuugcugacgagug
gcggacgggugaguaaugucugggaaacugccugauggagggggauaacu
acuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagaggggg
accuucgggccucuugccaucggaugugcccagaugggauuagcuaguag
gugggguaacggcucaccuaggcgacgaucccuagcuggucugagaggau
gaccagccacacuggaacugagacacgguccagacuccuacgggaggcag
caguggggaauauugcacaaugggcgcaagccugaugcagccaugccgcg
uguaugaagaaggccuucggguuguaaaguacuuucagcggggaggaagg
gaguaaaguuaauaccuuugcucauugacguuacccgcagaagaagcacc
ggcuaacuccgugccagcagccgcgguaauacggagggugcaagcguuaa
ucggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucagaug
ugaaauccccgggcucaaccugggaacugcaucugauacuggcaagcuug
agucucguagagggggguagaauuccagguguagcggugaaaugcguaga
gaucuggaggaauaccgguggcgaaggcggcccccuggacgaagacugac
gcucaggugcgaaagcguggggagcaaacaggauuagauacccugguagu
ccacgccguaaacgaugucgacuuggagguugugcccuugaggcguggcu
uccggagcuaacgcguuaagucgaccgccuggggaguacggccgcaaggu
uaaaacucaaaugaauugacgggggcccgcacaagcgguggagcaugugg
uuuaauucgaugcaacgcgaagaaccuuaccuggucuugacauccacgga
aguuuucagagaugagaaugugccuucgggaaccgugagacaggugcugc
auggcugucgucagcucguguugugaaauguuggguuaagucccgcaacg
agcgcaacccuuauccuuuguugccagcgguccggccgggaacucaaagg
agacugccagugauaaacuggaggaagguggggaugacgucaagucauca
uggcccuuacgaccagggcuacacacgugcuacaauggcgcauacaaaga
gaagcgaccucgcgagagcaagcggaccucauaaagugcgucguaguccg
gauuggagucugcaacucgacuccaugaagucggaaucgcuaguaaucgu
ggaucagaaugccacggugaauacguucccgggccuuguacacaccgccc
gucacaccaugggaguggguugcaaaagaaguagguagcuuaaccuucgg
gagggcgcuuaccacuuugugauucaugacuggggugaagucguaacaag
guaaccguaggggaaccugcgguuggauca

............<<<............<<<<...<<<<<<<......<<<
.<<<...<..........<<<<<<<<<<....>>>>>>>.>>>.......
>.......<<........<<<<<<..<<...<<<<<<<.<.<<.....<<
<<<......>>>>>......>>.>.....<<<....>>>....<<<<<<.
.<<....>>>>>>>>.>>>>>>>..>>.>>>>>>.<<<....<<<...<<
<<<.<........>>>>>>.>>>......>>>..<<<<<<........>>
...>>>>.>>.<<<<.<<.........>>>>>>.<<<<<..>>>>>...>
>>>>>.........<<<..................>>>...>.>>>>>>.
.<<<<.......<<......>>......>>>>...<.<<<<<......<<
<<<<<<.<.......>>>.>>>>.>>.......>>>>>....>..<<<<<
......<<<<......................>>>>>>>>>...>>>>..
.......................<.<...<<<..<<<<<<.<<<<<<<<<
<......<<<<<<.....>>>>>>....>>>>>>>>..>>>>>>>>....
<<<<<<<<...<<<<<.<.....<<<<<<<....................
.>>>>>>>.............<....>..>.>>>>>..>>>>.>>>>...
>>>...>.>......<<<.<...<<...<<<<.........>>>>...>>
.>>>>.............<<....<<<<<<<<<<<<.....>>>>>>>>>
>>>..................>>........<........<<<....>>>
......>....>>>........<<.<<<<.<<.<<<.....<<<<<.<.<
<.......<........>...........<<<<<<<......<<<<<<<.
.<<<<<<<....>>>>>>>...<<....>>..>>>>>.>>.<<<......
<<<<<<.........<.<.............<<<<......>>>>...>.
>.......<<<..<<<<<<....<...<<<.....>>>.>.....>>>>>
>.....<<<<<.....>>>>>.........>>>.........>>>...>>
>...>>>...>>>>>>>...>>..>.>>>>>......<<<<<<......<
...<<...<<<....>>>...>>.....>......>>>>>>.........
...<<<<<<..........>>>>>>.............>>>.....<<<<
<<.........>>>>>>.......>>...>>>>.>.>.............
.....<<...<....<<<<.<<<.......<<<<<<.<<<...<<....>
>..>>>>>>>>>......>>>.>>>>....>...>>..............
.....<..............>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v65 The Structure of the E. coli Ribosome Before and After Accommodation: Implications for Proofreading
• Resolution: 9.0 Å
• Binding residue (original residue number in PDB): K3 K15 M16 R26 F27 V28 H30 P31 I32 Y33 K35 K38 R39 K42 K68 K70
• Binding residue (residue number reindexed from 1): K1 K13 M14 R24 F25 V26 H28 P29 I30 Y31 K33 K36 R37 K40 K66 K68

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0046677 response to antibiotic

Cellular Component

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

External links

• PDB: RCSB:4v65, PDBe:4v65, PDBj:4v65
• PDBsum: 4v65
• UniProt: P0AG63|RS17_ECOLI Small ribosomal subunit protein uS17 (Gene Name=rpsQ)