Structure of PDB 4v8c Chain A6 Binding Site BS01

Receptor Information

>4v8c Chain A6 (length=45) Species: 300852 (Thermus thermophilus HB8)

LLLECTECKRRNYATEKNKRNTPNKLELRKYCPWCRKHTVHREVK

Ligand information

>4v8c Chain AA (length=2912)

ggucaagaugguaagggcccacgguggaugccucggcacccgagccgaug
aaggacguggcuaccugcgauaagccagggggagccgguagcgggcgugg
aucccuggauguccgaaugggggaacccggccggcgggaacgccggucac
cgcgcuuuuugcgcggggggaaccuggggaacugaaacaucucaguaccc
agaggagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggg
gaccagccuaaaccguccggcuuguccgggcggggucguggggcccucgg
acaccgaauccccagccuagccgaagcuguugggaagcagcgccagagag
ggugaaagccccguaggcgaaagguggggggauaggugaggguacccgag
uaccccgugguucguggagccaugggggaaucugggcggaccaccgccua
aggcuaaguacuccgggugaccgauagcgcaccaguaccgugagggaaag
gugaaaagaaccccgggaggggagugaaauagagccugaaaccgugggcu
uacaagcagucacggccccgcaagggguuguggcgugccuauugaagcau
gagccggcgacucacggucgugggcgagcuuaagccguugaggcggaggc
guagggaaaccgaguccgaacagggcgcaaacggcccgcacgcgggccga
aaaguccgcggccguggacccgaaaccgggcgagcuagcccuggccaggg
ugaagcuggggugagacccaguggaggcccgaaccggugggggaugcaaa
ccccucggaugagcuggggcuaggagugaaaagcuaaccgagcccggaga
uagcugguucuccccgaaaugacuuuagggucagccucaggcgcugacug
gggccuguagagcacugauagggcuagggggcccaccagccuaccaaacc
cugucaaacuccgaagggucccagguggagccugggagugagggcgcgag
cgauaacguccgcguccgagcgcgggaacaaccgagaccgccagcuaagg
cccccaagucugggcuaagugguaaaggauguggcgccgcgaagacagcc
aggauguuggcuuagaagcagccaucauuuaaagagugcguaauagcuca
cuggucgaguggcgccgcgccgaaaaugaucggggcuuaagcccagcgcc
gaagcugcgggucugggggaugaccccaggcgguaggggagcguucccga
ugccgaugaaggccgacccgcgagggcggcuggagguaagggaagugcga
augccggcaugaguaacgauaaagagggugagaaucccucucgccguaag
cccaaggguuccuacgcaauggucgucagcguaggguuaggcgggaccua
aggugaagccgaaaggcguagccgaagggcagccgguuaauauuccggcc
cuucccgcaggugcgauggggggacgcucuaggcuagggggaccggagcc
auggacgagcccggccagaagcgcagggugggagguaggcaaauccgccu
cccaacaagcucugcgugguggggaagcccguacgggugacaaccccccg
aagccagggagccaagaaaagccucuaagcacaaccugcgggaacccgua
ccgcaaaccgacacaggugggcgggugcaagagcacucaggcgcgcggga
gaacccucgccaaggaacucugcaaguuggccccguaacuucgggagaag
gggugcucccuggggugaugagccccggggagccgcagugaacaggcucu
ggcgacuguuuaccaaaaacacagcucucugcgaacucguaagaggaggu
auagggagcgacgcuugcccggugccggaaggucaaggggaggggugcaa
gccccgaaccgaagccccggugaacggcggccguaacuauaacgguccua
agguagcgaaauuccuugucggguaaguuccgaccugcacgaaaagcgua
acgaccggagcgcugucucggcgagggacccggugaaauugaacuggccg
ugaagaugcggccuacccguggcaggacgaaaagaccccguggagcuuua
cugcagccugguguuggcucuuggucgcgccugcguaggauaggugggag
ccugugaacccccgccuccgggugggggggaggcgccggugaaauaccac
ccuggcgcggcugggggccuaacccucggauggggggacagcgcuuggcg
ggcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcccaa
agguccccucaggcgggacggaaauccgccggagagcgcaaggguagaag
ggggccugacugcgaggccugcaagccgagcaggggcgaaagccgggccu
agugaaccgguggucccguguggaagggccaucgaucaacggauaaaagu
uaccccggggauaacaggcugaucucccccgagcguccacagcggcgggg
agguuuggcaccucgaugucggcucgucgcauccuggggcugaagaaggu
cccaaggguugggcuguucgcccauuaaagcggcacgcgagcuggguuca
gaacgucgugagacaguucggucucuauccgccacgggcgcaggaggcuu
gaggggggcucuuccuaguacgagaggaccggaagggacgcaccucuggu
uucccagcugucccuccaggggcauaagcuggguagccaugugcggaagg
gauaaccgcugaaagcaucuaagcgggaagcccgccccaagaugaggccu
cccacggcgucaagccgguaaggacccgggaagaccacccgguggauggg
ccggggguguaagcgccgcgaggcguugagccgaccggucccaaucgucc
gaggucuugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8c A new understanding of the decoding principle on the ribosome.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): R18 T23 E24 K25 K27 R28 P31 R37 K38 Y39 W42 K45 H46
• Binding residue (residue number reindexed from 1): R10 T15 E16 K17 K19 R20 P23 R29 K30 Y31 W34 K37 H38

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v8c, PDBe:4v8c, PDBj:4v8c
• PDBsum: 4v8c
• PubMed: 22437501
• UniProt: P35871|RL33_THET8 Large ribosomal subunit protein bL33 (Gene Name=rpmG)