Structure of PDB 6gzz Chain H2 Binding Site BS01

Receptor Information
>6gzz Chain H2 (length=50) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEAR
Ligand information
>6gzz Chain A2 (length=2912) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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
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>>...<<<....<<<<<<<.......>>>>>>>......<<<..<<<...
...<<...........<<.<<<....<<..........>>.((......<
<<.....))>>>...>>>...>>...........>>..>>>...>>>...
..<<<<<<<<.........>>>>>>.>>.....<<<<<..((((>>>>>.
.>>>...........>>>..>>...............<<....>>....>
>.........<<<<....>>>>..................>>>>>>>>>.
........<<<<<<<<<<<....>>>>>>>>>>>...<.<........>.
>.<<<<<<....<<<<<<<<<<<<...<<....<<<.....>>>....>>
...<<....>>..<<<<.....>>>>........................
....>>>>>>>>>>>>..<<....<<<<<<<.....<<<<<<<<<..<<<
....<<<<<<......>>>>>>.....>>>...<<<..<<<<........
>>>>.>>>....>>>>>>>>>...<<<.....>>>......>>>>>>...
>....>>..<<<<<<....<<<<<....>>>>><<.<<<<<<.....<<<
<<<<<<....<<....<<<<<.<...<.................>....>
>>>>>...>>.....>>>>>>>>>.....>>>>>.>.>>..<<<<<<<.<
<......>>.>>>>>>>.....<<<......>>>...<<<<.<<<...<<
<((......<<<<<<...........<<..<<<<<<<<<......<....
....<.....................>.......................
......>..>>>>>>>>>.>>...........))......>>>>>>.>>>
...>>>>>>><<<..<<<.....>>>..>>>....>>>>>><<<<<.<..
.<<<......<<<<<.<<<....>>>>>>>>...>>>...>>>>.>>...
..>>>>>><......<......<<<<<.........>>>>><<<<....<
<<<<.<<...<<<<<....<<.....>>..>>>>>....((<<<<.<<..
.<<<....<<....>>....>>>...>>....<<<<........>>>>.)
)<<<.<.<..<..............<<<<..<<....<<<..<<<<....
.[[[......>>>><<....<<<<<<<..<<<<.<..<.......>.>.>
>>>.......>>>>>>>...>.>......<.....>.........>>>..
...>>...>>>>.......................>.>..>>>>>>>>..
>>.....<<......>>>>>>>.<<<........>>>..>>>>...<<<.
...<<<<<<<<.<<...............<<<<<.....<..>......>
>>>><<<<<<<....<.....>....>>>>>>>............<<<<<
<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>.....
..>>>>>>>..<<<<.<<<..<<<<<<<...<<...<<...<<<<.....
.>>>>...>>...>>.>>>>>..>>>>>......................
.....<...........<<<<<<.....>>>>>>.....>....>>>>..
.>>.>>>>>>>.....>>.>>>>>>>>.>>>..>.....>.....<<<<.
.........>>>>..<<<<<<<<.<<<.........<<<<.<..<<<..<
<<<..<<<.<<<<..<<<<<<<.....<......................
............<..........>..........................
......>.....>>>>>>>...<<<<<....>>>>>.....>>>>.>>>.
..>>>>..<<<<.....>>>><<<<<<...........>>>>>>..<<..
.<<<<<<<...<<<<<<.......>>>>>>.....<....(((.>....>
>>>>>>....<.....<<......>>......>.<<<....>>>.>>)))
.......<<<<<<<.<<..))))..>>>>>>>>>.............>>>
....>>>>>.......<<<<...<<<<<<.<..<.......>...>>>>>
>>....>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>
>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....
<<<<<<<....>>>.>>>>........>>>>>>>>>>>....<<<<<<<.
..<<<<..<<<<<<<...............>>>>>>>.<<<<<...<<<<
...<<<<<<<<<<..]]].>>>>>...>>>>>...>>>>.>>>>>...<<
<.<..<<<...............>>>...>>>>.>>>>.......>>>>>
>>...................<<<<<<<.<........>>>>....<<<.
<<<<.<<.....<<<<<....>>>>>....>>..>>>>..>>>...>>>>
....>>>.....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6gzz Cryo-EM structure of the hibernating Thermus thermophilus 100S ribosome reveals a protein-mediated dimerization mechanism.
Resolution4.13 Å
Binding residue
(original residue number in PDB)
G24 Y25 R27 N28 Y29 S42 N43 K45
Binding residue
(residue number reindexed from 1)
G24 Y25 R27 N28 Y29 S42 N43 K45
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:6gzz, PDBe:6gzz, PDBj:6gzz
PDBsum6gzz
PubMed30301898
UniProtQ5SLQ1|RL9_THET8 Large ribosomal subunit protein bL9 (Gene Name=rplI)

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