Structure of PDB 4v8g Chain BR Binding Site BS01

Receptor Information

>4v8g Chain BR (length=118) Species: 300852 (Thermus thermophilus HB8)

MRHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDH
LIHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKL
AERRRGDGAPLALVELVE

Ligand information

>4v8g Chain BA (length=2809)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
ugcgcggggggaaccuggggaacugaaacaucucaguacccagaggagag
gaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagccu
aaaccguccggcuuguccgggcggggucguggggcccucggacaccgaau
ccccagccuagccgaagcuguugggaagcagcgccagagagggugaaagc
cccguaggcgaaagguggggggauaggugaggguacccgaguaccccgug
guucguggagccaugggggaaucugggcggaccaccgccuaaggcuaagu
acuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaaga
accccgggaggggagugaaauagagccugaaaccgugggcuuacaagcag
ucacggccccgcaagggguuguggcgugccuauugaagcaugagccggcg
acucacggucgugggcgagcuuaagccguugaggcggaggcguagggaaa
ccgaguccgaacagggcgcaagcgcgcaaaguccgcggccguggacccga
aaccgggcgagcuagcccuggccagggugaagcuggggugagacccagug
gaggcccgaaccggugggggaugcaaaccccucggaugagcuggggcuag
gagugaaaagcuaaccgagcccggagauagcugguucuccccgaaaugac
uuuagggucagccucaggcgcugacuggggccuguagagcacugauaggg
cuaggggccuaccaaacccugucaaacuccgaagggucccagguggagcc
ugggagugagggcgcgagcgauaacguccgcguccgagcgcgggaacaac
cgagaccgccagcuaaggcccccaagucugggcuaagugguaaaggaugu
ggcgccgcgaagacagcggucgaguggcgccgcgccgaaaaugaucgggg
cuuaagcccagcgccgaagcugcgggucuggggccccaggcgguagggga
gcguucccgaugccgaugaaggccgacccgcgagggcggcuggagguaag
ggaagugcgaaugccggcaugaguaacgauaaagagggugagaaucccuc
ucgccguaagcccaaggguuccuacgcaauggucgucagcguaggguuag
gcgggaccuaaggugaagccgaaaggcguagccgaagggcagccgguuaa
uauuccggcccuucccgcaggugcgauggggggacgcucuaggcuagggg
gaccggagccauggacgagcccggccagaagcgcagggugggagguaggc
aaauccgccucccaacaagcucugcgugguggggaagcccgggugacaac
cccccgaagccagggagccaagaaaagccucuaagcacaaccugcgggaa
cccguaccgcaaaccgacacaggugggcgggugcaagagcacucaggcgc
gcgggagaacccucgccaaggaacucugcaaguuggccccguaacuucgg
gagaaggggugcucccuggggugaugagccccggggagccgcagugaaca
ggcucuggcgacuguuuaccaaaaacacagcucucugcgaacucguaaga
ggagguauagggagcgacgcuugcccggugccggaaggucaaggggaggg
gugcaagccccgaaccgaagccccggugaacggcggccguaacuauaacg
guccuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaaa
agcguaacgaccggagcgcugucucggcgagggacccggugaaauugaac
uggccgugaagaugcggccuacccguggcaggacgaaaagaccccgugga
gcuuuacugcagccugguguuggcucuuggucgcgccugcguaggauagg
ugggagccugugaacccccgccuccgggugggggggaggcgccggugaaa
uaccacccuggcgcggcugggggccuaacccucggauggggggacagcgc
uuggcgggcaguuugacuggggcggucgccuccuaaaagguaacggaggc
gcccaaagguccccucaggcgggacggaaauccgccggagagcgcaaggg
uagaagggggccugacugcgaggccugcaagccgagcaggggcgaaagcc
gggccuagugaaccgguggucccguguggaagggccaucgaucaacggau
aaaaguuaccccggggauaacaggcugaucucccccgagcguccacagcg
gcggggagguuuggcaccucgaugucggcucgucgcauccuggggcugaa
gaaggucccaaggguugggcuguucgcccauuaaagcggcacgcgagcug
gguucagaacgucgugagacaguucggucucuauccgccacgggcgcagg
aggcuugaggggggcucuuccuaguacgagaggaccggaagggacgcacc
ucugguuucccagcugucccuccaggggcauaagcuggguagccaugugc
ggaagggauaaccgcugaaagcaucuaagcgggaagcccgccccaagaug
aggccucccacggcagccgguaaggacccgggaagaccacccgguggaug
ggccggggguguaagcgccgcgaggcguugagccgaccggucccaaucgu
ccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8g How hibernation factors RMF, HPF, and YfiA turn off protein synthesis.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): M1 R2 H3 L4 K5 S6 R8 K9 N11 R12 H13 S14 S15 H16 R17 A19 L20 R22 N23 K26 S27 H31 I34 T35 T36 K40 K42 D49 H50 H53 L60 H61 R64 R68 R77 R90 Q91 G92 G93 R96 K99 R104 R105 G106 D107
• Binding residue (residue number reindexed from 1): M1 R2 H3 L4 K5 S6 R8 K9 N11 R12 H13 S14 S15 H16 R17 A19 L20 R22 N23 K26 S27 H31 I34 T35 T36 K40 K42 D49 H50 H53 L60 H61 R64 R68 R77 R90 Q91 G92 G93 R96 K99 R104 R105 G106 D107

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v8g, PDBe:4v8g, PDBj:4v8g
• PDBsum: 4v8g
• PubMed: 22605777
• UniProt: Q9Z9H5|RL17_THET8 Large ribosomal subunit protein bL17 (Gene Name=rplQ)