Structure of PDB 6skf Chain Bh Binding Site BS01

Receptor Information

>6skf Chain Bh (length=62) Species: 311400 (Thermococcus kodakarensis)

GAGTAPKGKRNRTPTHIRCRRCGRRAFNVKKGYCAACGFGRSRRMRKYSW
SHKWRKKRNLSY

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

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

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): G2 A3 G4 T5 A6 K8 G9 R11 N12 R13 H17 C20 R21 R22 R26 V30 Y34 A36 S43 R45 R47 K48 Y49 S50 W51 S52 H53 K54 K57 K58 R59 N60
• Binding residue (residue number reindexed from 1): G1 A2 G3 T4 A5 K7 G8 R10 N11 R12 H16 C19 R20 R21 R25 V29 Y33 A35 S42 R44 R46 K47 Y48 S49 W50 S51 H52 K53 K56 K57 R58 N59

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0046872 metal ion 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: Q5JIE1|RL37_THEKO Large ribosomal subunit protein eL37 (Gene Name=rpl37e)