Structure of PDB 4v8h Chain BR Binding Site BS01

Receptor Information

>4v8h Chain BR (length=118) Species: 300852 (Thermus thermophilus HB8)

MRHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDH
LIHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKL
AERRRGDGAPLALVELVE

Ligand information

>4v8h Chain BA (length=2837)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
ugcgcggggggaaccuggggaacugaaacaucucaguacccagaggagag
gaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagccu
aaaccguccggcuuguccgggcggggucguggggcccucggacaccgaau
ccccagccuagccgaagcuguugggaagcagcgccagagagggugaaagc
cccguaggcgaaagguggggggauaggugaggguacccgaguaccccgug
guucguggagccaugggggaaucugggcggaccaccgccuaaggcuaagu
acuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaaga
accccgggaggggagugaaauagagccugaaaccgugggcuuacaagcag
ucacggccccgcaagggguuguggcgugccuauugaagcaugagccggcg
acucacggucgugggcgagcuuaagccguugaggcggaggcguagggaaa
ccgaguccgaacagggcgcaagcgggccgcggcccgcaaaguccgcggcc
guggacccgaaaccgggcgagcuagcccuggccagggugaagcuggggug
agacccaguggaggcccgaaccggugggggaugcaaaccccucggaugag
cuggggcuaggagugaaaagcuaaccgagcccggagauagcugguucucc
ccgaaaugacuuuagggucagccucaggcgcugacuggggccuguagagc
acugauagggcuagggggcccaccagccuaccaaacccugucaaacuccg
aagggucccagguggagccugggagugagggcgcgagcgauaacguccgc
guccgagcgcgggaacaaccgagaccgccagcuaaggcccccaagucugg
gcuaagugguaaaggauguggcgccgcgaagacagcggucgaguggcgcc
gcgccgaaaaugaucggggcuuaagcccagcgccgaagcugcgggucugg
gggaugaccccaggcgguaggggagcguucccgaugccgaugaaggccga
cccgcgagggcggcuggagguaagggaagugcgaaugccggcaugaguaa
cgauaaagagggugagaaucccucucgccguaagcccaaggguuccuacg
caauggucgucagcguaggguuaggcgggaccuaaggugaagccgaaagg
cguagccgaagggcagccgguuaauauuccggcccuucccgcaggugcga
uggggggacgcucuaggcuagggggaccggagccauggacgagcccggcc
agaagcgcagggugggagguaggcaaauccgccucccaacaagcucugcg
ugguggggaagcccguacgggugacaaccccccgaagccagggagccaag
aaaagccucuaagcacaaccugcgggaacccguaccgcaaaccgacacag
gugggcgggugcaagagcacucaggcgcgcgggagaacccucgccaagga
acucugcaaguuggccccguaacuucgggagaaggggugcucccuggggu
gaugagccccggggagccgcagugaacaggcucuggcgacuguuuaccaa
aaacacagcucucugcgaacucguaagaggagguauagggagcgacgcuu
gcccggugccggaaggucaaggggaggggugcaagccccgaaccgaagcc
ccggugaacggcggccguaacuauaacgguccuaagguagcgaaauuccu
ugucggguaaguuccgaccugcacgaaaagcguaacgaccggagcgcugu
cucggcgagggacccggugaaauugaacuggccgugaagaugcggccuac
ccguggcaggacgaaaagaccccguggagcuuuacugcagccugguguug
gcucuuggucgcgccugcguaggauaggugggagccugugaacccccgcc
uccgggugggggggaggcgccggugaaauaccacccuggcgcggcugggg
gccuaacccucggauggggggacagcgcuuggcgggcaguuugacugggg
cggucgccuccuaaaagguaacggaggcgcccaaagguccccucaggcgg
gacggaaauccgccggagagcgcaaggguagaagggggccugacugcgag
gccugcaagccgagcaggggcgaaagccgggccuagugaaccgguggucc
cguguggaagggccaucgaucaacggauaaaaguuaccccggggauaaca
ggcugaucucccccgagcguccacagcggcggggagguuuggcaccucga
ugucggcucgucgcauccuggggcugaagaaggucccaaggguugggcug
uucgcccauuaaagcggcacgcgagcuggguucagaacgucgugagacag
uucggucucuauccgccacgggcgcaggaggcuugaggggggcucuuccu
aguacgagaggaccggaagggacgcaccucugguuucccagcugucccuc
caggggcauaagcuggguagccaugugcggaagggauaaccgcugaaagc
aucuaagcgggaagcccgccccaagaugaggccucccacggcagccggua
aggacccgggaagaccacccgguggaugggccggggguguaagcgccgcg
aggcguugagccgaccggucccaaucguccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8h How Hibernation Factors RMF, HPF, and YfiA Turn Off Protein Synthesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): M1 R2 H3 L4 K5 S6 R8 K9 N11 R12 H13 S14 S15 H16 R17 A19 R22 N23 Q24 K26 S27 H31 I34 T35 T36 T37 K40 K42 R45 D49 H50 H53 R57 L60 H61 R63 R64 R68 R77 R90 Q91 G92 G93 T95 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 R22 N23 Q24 K26 S27 H31 I34 T35 T36 T37 K40 K42 R45 D49 H50 H53 R57 L60 H61 R63 R64 R68 R77 R90 Q91 G92 G93 T95 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:4v8h, PDBe:4v8h, PDBj:4v8h
• PDBsum: 4v8h
• PubMed: 22605777
• UniProt: Q9Z9H5|RL17_THET8 Large ribosomal subunit protein bL17 (Gene Name=rplQ)