Structure of PDB 6bok Chain GD Binding Site BS01

Receptor Information

>6bok Chain GD (length=255) Species: 562 (Escherichia coli)

LPKDPDDERNAFLEVRAGTGGDEAALFAGDLFRMYSRYAEARRWRVEIMS
ASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQRVPATESQGRIHTSA
CTVAVMPELPDAELPDINPADLRIDTFRSSGAGGQHVNTTDSAIRITHLP
TGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEASTRRNLLGS
GDRNRTYNFPQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQEHQADQL
AALSE

Ligand information

>6bok Chain A (length=1507)

uuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaaga
caugcaagucgugcgggccgcgggguuuuacuccguggucagcggcggac
gggugaguaacgcgugggugaccuacccggaagagggggacaacccgggg
aaacucgggcuaaucccccauguggacccgccccuugggguguguccaaa
gggcuuugcccgcuuccggaugggcccgcgucccaucagcuaguuggugg
gguaauggcccaccaaggcgacgacggguagccggucugagaggauggcc
ggccacaggggcacugagacacgggccccacuccuacgggaggcagcagu
uaggaaucuuccgcaaugggcgcaagccugacggagcgacgccgcuugga
ggaagaagcccuucgggguguaaacuccugaacccgggacgaaacccccg
aggaggggacugacgguaccgggguaauagcgccggccaacuccgugcca
gcagccgcgguaauacggagggcgcgagcguuacccggauucacugggcg
uaaagggcguguaggcggccuggggcgucccaugugaaagaccacggcuc
aaccgugggggagcgugggauacgcucaggcuagacggugggagagggug
guggaauucccggaguagcggugaaaugcgcagauaccgggaggaacgcc
gauggcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagc
guggggagcaaaccggauuagauacccggguaguccacgcccuaaacgau
gcgcgcuaggucucugggucuccugggggccgaagcuaacgcguuaagcg
cgccgccuggggaguacggccgcaaggcugaaacucaaaggaauugacgg
gggcccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaag
aaccuuaccaggccuugacaugcuagggaacccgggugaaagccuggggu
gccccgcgaggggagcccuagcacaggugcugcauggccgucgucagcuc
gugccgugagguguuggguuaagucccgcaacgagcgcaacccccgccgu
uaguugccagcgguucggccgggcacucuaacgggacugcccgcgaaagc
gggaggaaggaggggacgacgucuggucagcauggcccuuacggccuggg
cgacacacgugcuacaaugcccacuacaaagcgaugccacccggcaacgg
ggagcuaaucgcaaaaaggugggcccaguucggauuggggucugcaaccc
gaccccaugaagccggaaucgcuaguaaucgcggaucagccaugccgcgg
ugaauacguucccgggccuuguacacaccgcccgucacgccaugggagcg
ggcucuacccgaagucgccgggagccuacgggcaggcgccgaggguaggg
cccgugacuggggcgaagucguaacaagguagcuguaccggaaggugcgg
cuggauc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6bok Conformational Control of Translation Termination on the 70S Ribosome.
• Resolution: 3.55 Å
• Binding residue (original residue number in PDB): T119 G120 G121 R133 R183 Q185 Q193 G194 Q314 Y327
• Binding residue (residue number reindexed from 1): T19 G20 G21 R33 R83 Q85 Q93 G94 Q211 Y224

Gene Ontology

Molecular Function

• GO:0003747 translation release factor activity
• GO:0005515 protein binding
• GO:0016149 translation release factor activity, codon specific
• GO:0043022 ribosome binding

Biological Process

• GO:0006412 translation
• GO:0006415 translational termination

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:6bok, PDBe:6bok, PDBj:6bok
• PDBsum: 6bok
• PubMed: 29731232
• UniProt: P0A7I0|RF1_ECOLI Peptide chain release factor RF1 (Gene Name=prfA)