Structure of PDB 4v65 Chain AD Binding Site BS02

Receptor Information
>4v65 Chain AD (length=123) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRK
VCRVRLTNGFEVTSYIGGEGHNLQEHSVILIRGGRVKDLPGVRYHTVRGA
LDCSGVKDRKQARSKYGVKRPKA
Ligand information
>4v65 Chain A1 (length=1530) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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
Global viewLocal viewStructure summary

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PDB4v65 The Structure of the E. coli Ribosome Before and After Accommodation: Implications for Proofreading
Resolution9.0 Å
Binding residue
(original residue number in PDB)		V3 Q5 L6 R8 K9 P10 R11 A12 R13 K14 A16 K17 N19 V20 P21 E24 P27 Q28 R30 K42 R49 R55 T57 N58 G59 E61 Y65 R82 V86 K87 D88 G91 R93 R109 Q111 R113 S114 G117 V118 K119 R120
Binding residue
(residue number reindexed from 1)		V3 Q5 L6 R8 K9 P10 R11 A12 R13 K14 A16 K17 N19 V20 P21 E24 P27 Q28 R30 K42 R49 R55 T57 N58 G59 E61 Y65 R82 V86 K87 D88 G91 R93 R109 Q111 R113 S114 G117 V118 K119 R120
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
GO:0034336 misfolded RNA binding
Biological Process
GO:0000372 Group I intron splicing
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0033120 positive regulation of RNA splicing
GO:0034337 RNA folding
GO:0046677 response to antibiotic
GO:1990145 maintenance of translational fidelity
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:0022627 cytosolic small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v65, PDBe:4v65, PDBj:4v65
PDBsum4v65
PubMed
UniProtP0A7S3|RS12_ECOLI Small ribosomal subunit protein uS12 (Gene Name=rpsL)

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