Structure of PDB 4v66 Chain BZ Binding Site BS02

Receptor Information

>4v66 Chain BZ (length=213) Species: 2285 (Sulfolobus acidocaldarius)

MLADKESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDKKGDLKLREI
VPLPKQPSKAKRVLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVK
KLARQNEWFLINQESALAGRILGPALGPRGKFPTPLPNTADISEYINRFK
RSVLVKTKDQPQVQVFIGTEDKPEDLAENAIAVLNAIENKAKVETNLRNI
YVKTTGKAVKVKR

Ligand information

>4v66 Chain BB (length=2903)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggucaucccgacuuaccaa
cccgaugcaaacugcgaauaccggagaauguuaucacgggagacacacgg
cgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcua
aggucccaaagucaugguuaagugggaaacgaugugggaaggcccagaca
gccaggauguuggcuuagaagcagccaucauuuaaagaaagcguaauagc
ucacuggucgagucggccugcgcggaagauguaacggggcuaaaccaugc
accgaagcugcggcagcgacgcuuaugcguuguuggguaggggagcguuc
uguaagccugcgaaggugugcugugaggcaugcuggagguaucagaagug
cgaaugcugacauaaguaacgauaaagcgggugaaaagcccgcucgccgg
aagaccaaggguuccuguccaacguuaaucggggcagggugagucgaccc
cuaaggcgaggccgaaaggcguagucgaugggaaacagguuaauauuccu
guacuugguguuacugcgaaggggggacggagaaggcuauguuggccggg
cgacgguugucccgguuuaagcguguaggcugguuuuccaggcaaauccg
gaaaaucaaggcugaggcgugaugacgaggcacuacggugcugaagcaac
aaaugcccugcuuccaggaaaagccucuaagcaucagguaacaucaaauc
guaccccaaaccgacacagguggucagguagagaauaccaaggcgcuuga
gagaacucgggugaaggaacuaggcaaaauggugccguaacuucgggaga
aggcacgcugauauguaggugaggucccucgcggauggagcugaaaucag
ucgaagauaccagcuggcugcaacuguuuauuaaaaacacagcacugugc
aaacacgaaaguggacguauacggugugacgccugcccggugccggaagg
uuaauugaugggguuagcgcaagcgaagcucuugaucgaagccccgguaa
acggcggccguaacuauaacgguccuaagguagcgaaauuccuugucggg
uaaguuccgaccugcacgaauggcguaaugauggccaggcugucuccacc
cgagacucagugaaauugaacucgcugugaagaugcaguguacccgcggc
aagacggaaagaccccgugaaccuuuacuauagcuugacacugaacauug
agccuugauguguaggauaggugggaggcuuugaaguguggacgccaguc
ugcauggagccgaccuugaaauaccacccuuuaauguuugauguucuaac
guugacccguaauccggguugcggacagugucugguggguaguuugacug
gggcggucuccuccuaaagaguaacggaggagcacgaagguuggcuaauc
cuggucggacaucaggagguuagugcaauggcauaagccagcuugacugc
gagcgugacggcgcgagcaggugcgaaagcaggucauagugauccggugg
uucugaauggaagggccaucgcucaacggauaaaagguacuccggggaua
acaggcugauaccgcccaagaguucauaucgacggcgguguuuggcaccu
cgaugucggcucaucacauccuggggcugaaguaggucccaaggguaugg
cuguucgccauuuaaagugguacgcgagcuggguuuagaacgucgugaga
caguucggucccuaucugccgugggcgcuggagaacugaggggggcugcu
ccuaguacgagaggaccggaguggacgcaucacugguguucggguuguca
ugccaauggcacugcccgguagcuaaaugcggaagagauaagugcugaaa
gcaucuaagcacgaaacuugccccgagaugaguucucccugacccuuuaa
ggguccugaaggaacguugaagacgacgacguugauaggccgggugugua
agcgcagcgaugcguugagcuaaccgguacuaaugaaccgugaggcuuaa
ccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v66 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): M1 K5 E6 E10 K13 R63 R98 K101 R105 R131 K158 Q162 P163 Q164 Q166 Y204 G210 K211 A212 K216 R217
• Binding residue (residue number reindexed from 1): M1 K5 E6 E10 K13 R62 R97 K100 R104 R129 K156 Q160 P161 Q162 Q164 Y201 G206 K207 A208 K212 R213

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0006417 regulation of translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v66, PDBe:4v66, PDBj:4v66
• PDBsum: 4v66
• UniProt: P35024|RL1_SULAC Large ribosomal subunit protein uL1 (Gene Name=rpl1)