Structure of PDB 6skf Chain BL Binding Site BS01

Receptor Information

>6skf Chain BL (length=140) Species: 311400 (Thermococcus kodakarensis)

AKKGAGATRGISPVRPTRALPIGAYLKVADNSGAKVIQIIGVVGYKGTRR
RLAAAGVGDMVVATVKKGRPDMRHQVVRAVVVRQRKEYRRLDGMRVKFED
NAAAIVTPEGVPRGTEIRGAIAREAAERWVRLGSIASIVL

Ligand information

>6skf Chain BA (length=2929)

cccgguggcaacuaagccgccugguggauggcucggcucggggcgccgac
gaagggcguggcaagcugcgauaagccccggcgaggcgcaggcagccguc
gaaccggggaugcccgaaugggaccucccgcggcuugccgcacucccagu
cgggagggggaacgcggggaauugaaacaucuuaguacccgcaggaaaag
aaagcaaaagcgaugccguuaguaggggcgaccgaaagcggcacagggca
aacugaaccccgggccgaaagguucgggggaugugguguuguagggcccg
cggaggagcccugggggcgaagccgaaguccgcuggaacgcggcgccgga
gagggugaaagccccguaggcguaagcccccgagcuccugcggugucccu
gaguaccgucggucggauauccggcgggaagcugggaggcaucggcuccc
aacccuaaauacgucccgagaccgauagcgaacuaguaccgugagggaaa
gcugaaaagcaccccgggaggggggugaaaagagccugaagccaggcggc
gauaggagggugcggcccgaaaggguugacccuccccgaaggaaacacgg
gcgaccguggaguacgaggggaggugaccgggguugcaccguccgucuug
gaucacggggcagggaguucacccgagcggcgagguuaagggggucaacc
ccgaagccgcagggaaaccgacagguccgcagcccguagggcgagggacg
gggugugaaagcgcccggagucgcucgggugagacccgaagccggucgau
cuagcccggggcagggugaagucccucaacagagggauggaggcccgcua
ggggugcugacgugcaauucgcucccgugaccccgggcuaggggugaaag
gccaaucgaggccggcgauagcugguucccgccgaauuaucccccaggau
agcccggccggagguaggcagugggguagagcacugauuggggguuuagg
gggcgaaagccuccggcucccugucaaacuccgaacccacugccgccgua
gauggccggaguaggggggcgguguaagccgucacccgagaggggaacaa
cccagaccgggguuaaggccccaaagugccggcuaaguguuacuccaaag
ggugucccuggccuuagacagcggcccgucgaggucaggggccccgaaaa
uggacggggcuuaagccggccgccgagaccccggcgcacggaccgauugg
uccgugaucggguaggcgggcgugccgauggggcggaagccgggccguga
gguccgguggacccgucgguauugcggauccugccgggaguagcagcaua
gccgggugagaaucccggccgccguaggggccaggguuccacggcaaugu
ucgucagccguggguuagucgguccuaacccgacccguaacucggcgucg
gggaaagggaaacggguuuauauucccguaccgcggugguaggugcggca
acgcaagcccgaggggugacgccucgggguaggcggaccgguccacaagg
ccggcuaagcguauaagcccggggagugccguaauggcgagaaccgggug
aaagcgcgaauggccucccguaagggggguuccgccgaucccuggggccc
gugaaaagccccucgggaacgauccaccgcgaccguaccgagaaccgaca
cuggugccccugggugagaagccuaaggcgugucgggggaaacccagccg
agggaacucggcaaauuggccccguaacuucgggagaaggggugccugcg
gguguguaacccgcaggucgcagugacuaggggggcccgacuguuuagua
aaaacacaggucccagcuagcccgaaaggguuuguacuggggccgacgcc
ugcccagugccgguaugugaagcccggguacaaccgggugaagcaccggu
aaacggcggggguaacuauaacccucuuaagguagcgaaauuccuugucg
guuaaaugccgaccugcaugaauggcguaacgagguccccacuguccccg
gcuggggcccggcgaaaccucugccaggcgcauaugccugggaccuccgg
ugggaagcgaagaccccauggagcuuuacugcagccugccguugccguac
ggcggggggugcgcagcguaggcgggaggcgucgaagcccgcccuccggg
gcggguggagccgcccaugagacaccgcccacccucugccguacggcuaa
cccgcggaagcggggacagcgguaggugggcaguuuggcuggggcggcac
acccucgaaaagguaucgagggugcccuaaggucggcucaggcgggucuc
cgccguagagugcaagggcaaaagccggccugacuggacccguaacagag
gcggguccagccgcgaaagcguggccuagcgaaccccugugccuccccgg
ugggggccagggaugacagaaaagcuacccuggggauaacagagucgucu
cgggcgagagcccauaucgaccccgaggcuugcuaccucgcugucggcuc
uucccauccuggcccugcagcaggggccaaggguggggguguucacccau
uaaaggggaacgugagcuggguuuagaccgucgugagacaggucggaugc
uaucuaccggagguguuggccgccugaggggaaggcucccccaguacgag
aggaacagggagccgcggccucuggucuaccgguuguccuacagggcaua
gccgggcagcuacgccgcagccgauaaggccugaaagcaucuaaggccga
agcggcccccgaaaacaggcggccaccgagggcccgggaagaagacccgg
uugauggggcggggauguaagcgggaagggaaaccgacccguucagucug
ccgcucccaacagcccgagugcuaccggg

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6skf Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping.
• Resolution: 2.95 Å
• Binding residue (original residue number in PDB): A2 K3 T18 P22 G24 A25 Y26 K47 T49 R50 R51 R52 L53 T65 R86 K87 R96
• Binding residue (residue number reindexed from 1): A1 K2 T17 P21 G23 A24 Y25 K46 T48 R49 R50 R51 L52 T64 R85 K86 R95

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6skf, PDBe:6skf, PDBj:6skf
• PDBsum: 6skf
• PubMed: 32555463
• UniProt: Q5JJF8|RL14_THEKO Large ribosomal subunit protein uL14 (Gene Name=rpl14)