Structure of PDB 1vy7 Chain AP Binding Site BS01

Receptor Information
>1vy7 Chain AP (length=82) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MVKIRLARFGSKHNPHYRIVVTDARRKRDGKYIEKIGYYDPRKTTPDWLK
VDVERARYWLSVGAQPTDTARRLLRQAGVFRQ
Ligand information
>1vy7 Chain AA (length=1498) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaaga
caugcaagucgugcgggccgcggguccguggucagcggcggacgggugag
uaacgcgugggugaccuacccggaagagggggacaacccggggaaacucg
ggcuaaucccccauguggacccgccccuugggguguguccaaagggcuuu
gcccgcuuccggaugggcccgcgucccaucagcuaguuggugggguaaug
gcccaccaaggcgacgacggguagccggucugagaggauggccggccaca
ggggcacugagacacgggccccacuccucgggaggcagcaguuaggaauc
uuccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaagaag
cccuucgggguguaaacuccugaacccgggacgaaacccccgacgagggg
acugacgguaccgggguaauagcgccggccaacuccgugccagcagccgc
gguaauacggagggcgcgagcguuacccggauucacugggcguaaagggc
guguaggcggccuggggcgucccaugugaaagaccacggcucaaccgugg
gggagcgugggauacgcucaggcuagacggugggagagggugguggaauu
cccggaguagcggugaaaugcgcagauaccgggaggaacgccgauggcga
aggcagccaccugguccacccgugacgcugaggcgcgaaagcguggggag
caaaccggauuagauacccggguaguccacgcccuaaacgaugcgcgcua
ggucucugggucuccugggggccgaagcuaacgcguuaagcgcgccgccu
ggggaguacggccgcaaggcugaaacucaaaggaauugacgggggcccgc
acaagcgguggagcaugugguuuaauucgaagcaacgcgaagaaccuuac
caggccuugacaugcuagggaacccgggugaaagccuggggugccccgcg
aggggagcccuagcacaggugcugcauggccgucgucagcucgugccgug
agguguuggguuaagucccgcaacgagcgcaacccccgccguuaguugcc
agcgguucggccgggcacucuaacgggacugcccgcgaaagcgggaggaa
ggaggggacgacgucuggucagcauggcccuuacggccugggcgacacac
gugcuacaaugcccacuacaaagcgaugccacccggcaacggggagcuaa
ucgcaaaaaggugggcccaguucggauuggggucugcaacccgaccccau
gaagccggaaucgcuaguaaucgcggaucagccaugccgcggugaauacg
uucccgggccuuguacacaccgcccgucacgccaugggagcgggcucuac
ccgaagucgccgggagccuacgggcaggcgccgaggguagggcccgugac
uggggcgaagucguaacaagguagcuguaccggaaggugcggcuggau
.....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<
<.<<<..<<<..<<.<<<<<<<<..>>>>>>>>.>>>>>......<<...
....<<<<<<<<..<<...<<<<<<<.<<<<.....<<<<<......>>>
>>......>>>>...<<<<<.<<<<<....>>>>>.>>>>>..<<<<...
>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<......
.>>>>>>>>>>>......>>>..<<<<<<<<..[.>>>>...>>>>.>>.
<<<<<.<.........>>>>>>.<<<<...>>>>...>>>>>>>......
..<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<......<
<<<....>>>>.....>>>>....<<<<<........<<<<.....>>>>
..........>>>>>......<<<<<(((...<<<<<.....<<.)))>>
.......>>>>>>>>>>..>>>>>>>>>.......]..<<<((.....<<
<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>>>
....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<
<<<<<.<..<<<......>>>.....>.>>>>>>>...........<<..
..>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<<<<...<
<...<<<<.<.....>.>>>>...>>>>>>>>..........<<<<<<..
<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.
<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<.
<<.<<<<<<..<<<<<<<<<<......<<........>>..........<
<<<<<<......<<<<<<<<..<<<<<<<....>>>>>>>.....<....
..>....>>>>>>>>.<<<.<<<..<<<<<<.......<<<<<<<<<...
.>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<<<..<<<
..<<<.....>>>>>>...>>>>>>>.....<<<<<....>>>>>.....
...>>>>.........>>>...>>>>>>>>>...>>>>>>>...>>.>>>
>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>..>>...
.>>>.....>>>>>>>......<....<<<<<<<........>>>>>>>.
...>.....>>>>>>....<<<<<<<..........>>>>>>>......>
>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<<<<<
<<...<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>>>>>..>
>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>....
Receptor-Ligand Complex Structure
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PDB1vy7 A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		M1 V2 K3 R5 L6 R8 G10 S11 K12 H13 N14 H16 Y17 R18 D23 A24 R25 R26 K27 R28 K31 I33 K35 Y38 K43 T44 W59 S61 V62 G63 Q65 T67 D68 T69 R72 R75 F80 R81
Binding residue
(residue number reindexed from 1)		M1 V2 K3 R5 L6 R8 G10 S11 K12 H13 N14 H16 Y17 R18 D23 A24 R25 R26 K27 R28 K31 I33 K35 Y38 K43 T44 W59 S61 V62 G63 Q65 T67 D68 T69 R72 R75 F80 R81
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:0015935 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:1vy7, PDBe:1vy7, PDBj:1vy7
PDBsum1vy7
PubMed25132179
UniProtQ5SJH3|RS16_THET8 Small ribosomal subunit protein bS16 (Gene Name=rpsP)

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