Structure of PDB 4v8g Chain B0 Binding Site BS01

Receptor Information

>4v8g Chain B0 (length=76) Species: 300852 (Thermus thermophilus HB8)

STRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFT
LFALVDGVVEFQDRGRLGRYVHVRPL

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): S9 N12 R14 D15 S16 A18 K19 R20 K24 Y26 E27 Q29 A33 G34 N35 I36 R39 R41 G42 T43 G54 R55 D56 F57 F69 R74 R77
• Binding residue (residue number reindexed from 1): S1 N4 R6 D7 S8 A10 K11 R12 K16 Y18 E19 Q21 A25 G26 N27 I28 R31 R33 G34 T35 G46 R47 D48 F49 F61 R66 R69

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: P60493|RL27_THET8 Large ribosomal subunit protein bL27 (Gene Name=rpmA)