Structure of PDB 8j1z Chain 0 Binding Site BS01

Receptor Information

>8j1z Chain 0 (length=51) Species: 562 (Escherichia coli)

GIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAK
I

Ligand information

>8j1z Chain a (length=2513)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcccgaugcaaacugcgaauaccgga
gaauguuaucacgggagacacacggcgggugcuaacguccgucgugaaga
gggaaacaacccagaccgccagcuaaggucccaaagucaugguuaagugg
gaaacgaugugcgcggaagauguaacggggcuaaaccaugcaccgaagcu
gcggcagcgacgcgcguuguuggguaggggagcguucuguaagccugcga
aggugugcugugaggcaugcuggagguaucagaagugcgaaugcugacau
aaguaacgauaaagcgggugaaaagcccgcucgccggaagaccaaggguu
ccuguccaacguuaaucggggcagggugagucgaccccuaaggcgaggcc
gaaaggcguagucgaugggaaacagguuaauauuccuguacuugguguua
cugcgaaggggggacggagaaggcuauguuggccgggcgacgguuguccc
gguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggcu
gaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcuu
ccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaaccg
acacagguggucagguagagaauaccaaggcgcuugagagaacucgggug
aaggaacuaggcaaaauggugccguaacuucgggagaaggcacgcugaua
uguaggugaggucccucgcggauggagcugaaaucagucgaagauaccag
cuggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaagug
gacguauacggugugacgccugcccggugccggaagguuaauugaugggg
uuagcgcaagcgaagcucuugaucgaagccccgguaaacggcggccguaa
uaacgguccuaagguagcgacgaauggcguaaugauggccaggcugucuc
cacccgagacucagugaaauugaacucgcugugaagaugcaguguacccg
cggcaagacggaagaccccgugaaccuuuacuauagcuugacacugaaca
uugaguuugauguucuaacguugacccguaauccggguugcggacagugu
cugguggguaguuugacuggggcggucuccuccuaaagaguaacggagga
gcacgaagguuggcuaauccuggucggacaucaggagguuagugcaaugg
cauaagccagcuugacugcgagcgugacggcgcgagcaggugcgaaagca
ggucauagugauccggugguucugaauggaagggccaucgcucaacggau
aaaagguacuccggggagucccuaucugccgugggcgcuggagaacugag
gggggcugcuccuaguacgagaggaccggaguggacgcaucacugguguu
cggguugucaugccaauggcacugcccgguagcuaaaugcggaagagaua
agugcugaaagcaucuaagcacgaaacuugccccgagaugaguucucccu
gacccuuuaaggguccugaaggaacguugaagacgacgacguugauaggc
cggguguguaagcgcagcgaugcguugagcuaaccgguacuaaugaaccg
ugaggcuuaaccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8j1z PTC Remodeling in Pre50S Intermediates: Insights into the Role of DEAD-box RNA Helicase DbpA
• Resolution: 2.6 Å
• Binding residue (original residue number in PDB): R6 K8 F20 Y21 T22 T23 T24 N26 K30 L34 L36 K37 K38 F39 R44 H46
• Binding residue (residue number reindexed from 1): R3 K5 F17 Y18 T19 T20 T21 N23 K27 L31 L33 K34 K35 F36 R41 H43

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0046677 response to antibiotic

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8j1z, PDBe:8j1z, PDBj:8j1z
• PDBsum: 8j1z
• UniProt: P0A7N9|RL33_ECOLI Large ribosomal subunit protein bL33 (Gene Name=rpmG)