Structure of PDB 4v4i Chain A Binding Site BS01

Receptor Information

>4v4i Chain A (length=127) Species: 262724 (Thermus thermophilus HB27)

KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRS
DQNVRGTVSIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKP
EGAKGTFLRSVYVTTTMGPSVRINPHS

Ligand information

>4v4i Chain w (length=2889)

ggucaagaugguaagggcccacgguggaugccucggcacccgagccgaug
aaggacguggcuaccugcgauaagccagggggagccgguagcgggcgugg
aucccuggauguccgaaugggggaacccggccggcgggaacgccggucac
cgcgcuuuuugcgcggggggaaccuggggaacugaaacaucucaguaccc
agaggagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggg
gaccagccuaaaccguccggcuuguccgggcggggucguggggcccucgg
acaccgaauccccagccuagccgaagcuguugggaagcagcgccagagag
ggugaaagccccguaggcgaaagguggggggauaggugaggguacccgag
uaccccgugguucguggagccaugggggaaucugggcggaccaccgccua
aggcuaaguacuccgggugaccgauagcgcaccaguaccgugagggaaag
gugaaaagaaccccgggaggggagugaaauagagccugaaaccgugggcu
uacaagcagucacggccccgcaagggguuguggcgugccuauugaagcau
gagccggcgacucacggucgugggcgagcuuaagccguugaggcggaggc
guagggaaaccgaguccgaacagggcgucuaguccgcggccguggacccg
aaaccgggcgagcuagcccuggccagggugaagcuggggugagacccagu
ggaggcccgaaccggugggggaugcaaaccccucggaugagcuggggcua
ggagugaaaagcuaaccgagcccggagauagcugguucuccccgaaauga
cuuuagggucagccucaggcgcugacuggggccuguagagcacugauagg
gcuagggggcccaccagccuaccaaacccugucaaacuccgaaggguccc
agguggagccugggagugagggcgcgagcgauaacguccgcguccgagcg
cgggaacaaccgagaccgccagcuaaggcccccaagucugggcuaagugg
uaaaggauguggcgccgcgaagacagccaggagguuggcuuagaagcagc
cauccuuuaaagagugcguaauagcucacuggucgaguggcgccgcgccg
aaaaugaucggggcucaagcccagcgccgaagcugcgggucugggggaug
accccaggcgguaggggagcguucccgaugccgaugaaggccgacccgcg
agggcggcuggagguaagggaagugcgaaugccggcaugaguaacgauaa
agagggugagaaucccucucgccguaagcccaaggguuccuacgcaaugg
ucgucagcguaggguuaggcgggaccuaaggugaagccgaaaggcguagc
cgaagggcagccgguuaauauuccggcccuucccgcaggugcgauggggg
gacgcucuaggcuagggggaccggagccauggacgagcccggccagaagc
gcagggugggagguaggcaaauccgccucccaaaagcucugcgugguggg
gaagcccguacgggugacaaccccccgaagccagggagccaagaaaagcc
ucuaagcacaaccugcgggaacccguaccgcaaaccgacacaggugggcg
ggugcaagagcacucaggcgcgcgggagaacccucgccaaggaacucugc
aaguuggccccguaacuucgggagaaggggugcucccuggggugaugagc
uccggggagccgcagugaacaggcucuggcgacuguuuaccaaaaacaca
gcucucugcgaacucguaagaggagguauagggagcgacgcuugcccggu
gccggaaggucaaggggaggggugcaagccccgaaccgaagccccgguga
acggcggccguaacuauaacgguccuaagguagcgaaauuccuugucggg
uaaguuccgaccugcacgaaaagcguaacgaccggagcgcugucucggcg
agggacccggugaaauugaacuggccgugaagaugcggccuacccguggc
aggacgaaaagaccccguggagcuuuacugcagccugguguuggcucuug
gucgcgccugcguaggauaggugggagccugugaacccccgccuccgggu
gggggggaggcgccggugaaauaccacccuggcgcggcugggggccuaac
ccucggauggggggacagcgcuuggcgggcaguuugacuggggcggucgc
cuccuaaaagguaacggaggcgcccaaagguccccucaggcgggacggaa
auccgccggagagcgcaaggguagaagggggccugacugcgaggccugca
agccgagcaggggcgaaagccgggccuagugaaccgguggucccgugugg
aagggccaucgaucaacggauaaaaguuaccccggggauaacaggcugau
cucccccgagcguccacagcggcggggagguuuggcaccucgaugucggc
ucgucgcauccuggggcugaagaaggucccaaggguugggcuguucgccc
auuaaagcggcacgcgagcuggguucagaacgucgugagacaguucgguc
ucuauccgccacgggcgcaggaggcuugaggggggcucuuccuaguacga
gaggaccggaagggacgcaccucugguuucccagcugucccuccaggggc
auaagcuggguagccaugugcggaagggauaaccgcugaaagcaucuaag
cgggaagcccgccccaagaugaggccucccacggcgucaagccgguaagg
acccgggaagacgacccgguggaugggccggggguguaagcgccgcgagg
cguugagccgaccggucccaaucguccgaggucuugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v4i Crystal Structure of a 70S Ribosome-tRNA Complex Reveals Functional Interactions and Rearrangements
• Resolution: 3.71 Å
• Binding residue (original residue number in PDB): R7 K37 F38 T41 E43 H45 K47 K168 I172 H173 P175 K206 G207 T208 T216 T217 T218 M219 G220 P221 S222
• Binding residue (residue number reindexed from 1): R2 K32 F33 T36 E38 H40 K42 K66 I70 H71 P73 K104 G105 T106 T114 T115 T116 M117 G118 P119 S120

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:4v4i, PDBe:4v4i, PDBj:4v4i
• PDBsum: 4v4i
• PubMed: 16962654
• UniProt: Q5SLP7|RL1_THET8 Large ribosomal subunit protein uL1 (Gene Name=rplA)