Structure of PDB 6gzx Chain d1 Binding Site BS01

Receptor Information
>6gzx Chain d1 (length=61) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLA
KPEAERIKLLL
Ligand information
>6gzx Chain A1 (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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>>...........<<....>>....<<<<.....<<.....>>....>>>
>....<<<....<<<<<<<<.....>>>>>>>>......<<.<<<.<...
....<.........<<<<.<<.....<<<........>>>.((......<
<<.....))>>>....>>...>>>>.........>...>.>>>..>>...
..<<<<<<<...........>>>>>>>.......<<<<..((((>>>>..
.>>>.......>..>>>>..>>...............<<....>>.....
..........<<<<....>>>>..................>>>>>>>>>>
>.......<<<<<<<<<<<....>>>>>>>>>>>................
..<<<<<<....<<<<<<<<<<<<<..<<<...<<.......>>...>>>
...<<....>>..<<<.......>>>........................
...>>>>>>>>>>>>>..<<.....<<<<<<......<<<<<<<<...<<
....<<<<<<......>>>>>>.....>>.....<<...<<<........
>>.>.>>.....>>>>>>>>.....<<.....>.>......>>>>>>...
.....>>..<<<<<<....<<<<<....>>>>><<.<<<<<<.....<<<
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>>>>>...>>.>...>>.>>>>>>.....>>>>>.>.>>..<<<<<<<.<
<......>>.>>>>>>>......<<......>>....<<<<.<<<...<<
<((.(....<<<<.............<<..<<<<.<<<.........<<<
<.................................................
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.<<<......<<<<<.<<<....>>>>>>>>...>>>...>.....>...
..>>>>>>.......<<.....<<<<<<.......>>>>>><<<<....<
<<<..<<....<<<<<.............>>>>>.....((<<<<.<<..
.<.<...<<<....>>>...>.>...>>....<<<<........>>>>.)
).<<<<<<<<.......<<<<.....<<<.....<.<<<<<.<<<<.<<.
........>>>>>>.......<<<<<<..<<<<<<<..........>>>>
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>>.....<<......>>.>>>>.<<<<......>>>>..>>>>...<<<.
...<<<<<<<<..<...............<<<<<....<<..>>.....>
>>>><<<<<<<<<<<<.....>>>>>>>>>>>>............<<<<<
<<<<..<<<.........>>>..<<<<<<<....................
..>>>>>>>...<<<.<<<..<<<<<<<..<<<...<....<<<<<....
>>>>>....>...>>>>>>>>..>>>>><<<<<<.......>>>>>>...
.....<...........<<<<<<.....>>>>>>.....>....>>>...
.>>.>>>>>>>.....>..>>>>>>>>.>>>.>>...........<<<<<
........>>>>>..<<<<<<<<.<<<..........<<<.<<.<<<..<
<<<<.<<<.<<<<<.<<<<<<.............................
.........<<..............>>.......................
.............>>>>>>...<<<<......>>>>....>>>>>.>>>.
.>>>>>..<<<<.....>>>><<<<<<...........>>>>>>..<<..
..<<<<<<...<<<<.<.......>.>>>>.....<.....((.>....>
>>>>>....<<<..................>>>.<<......>>.>>)).
........<<<<<<.<<..))))..>>>>>>>>..............>>>
...>>>>>........<<<<.<.<<<<<<...<<.......>>...>>>>
>>...>>>>.>.........<<<..<<<<...<<<<<<<<........>>
>>>..>>>.<<<<<.....>>>>>......>>>>......>>>.......
<<<<<<<....>>>.>>>>........>>>>>>>>>>>....<<<<<<<.
..<<<<..<<<<<<<...............>>>>>>>.<<<<<...<<<<
...<<<<<.<<<<......>>>>....>>>>>...>>>>.>>>>>...<<
<....<.<<<...........>>>..>...>>>.>>>>.......>>>>>
>>..<<<.......>>>....<<<<<<<<<.......>>>>>....<<<.
<<<<.<<<.....<<<<....>>>>....>>>..>>>>..>>>...>>>>
.....>>.>...
Receptor-Ligand Complex Structure
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PDB6gzx Cryo-EM structure of the hibernating Thermus thermophilus 100S ribosome reveals a protein-mediated dimerization mechanism.
Resolution4.57 Å
Binding residue
(original residue number in PDB)		K3 K5 T6 H7 K8 K11 K12 K15 S19 K26 T27 G28 K29 R30 H31 N33 W34 K36 S37 K39 R42 R46 F48 L50 E54 A55 L62
Binding residue
(residue number reindexed from 1)		K2 K4 T5 H6 K7 K10 K11 K14 S18 K25 T26 G27 K28 R29 H30 N32 W33 K35 S36 K38 R41 R45 F47 L49 E53 A54 L61
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
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6gzx, PDBe:6gzx, PDBj:6gzx
PDBsum6gzx
PubMed30301898
UniProtQ5SKU1|RL35_THET8 Large ribosomal subunit protein bL35 (Gene Name=rpmI)

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