Home Research COVID-19 Services Publications People Teaching Job Opening News Forum Lab Only
Online Services

●I-TASSER ●I-TASSER-MTD ●C-I-TASSER ●CR-I-TASSER ●QUARK ●C-QUARK ●LOMETS ●MUSTER ●CEthreader ●SEGMER ●DeepFold ●DeepFoldRNA ●FoldDesign ●COFACTOR ●COACH ●MetaGO ●TripletGO ●IonCom ●FG-MD ●ModRefiner ●REMO ●DEMO ●DEMO-EM ●SPRING ●COTH ●Threpp ●PEPPI ●BSpred ●ANGLOR ●EDock ●BSP-SLIM ●SAXSTER ●FUpred ●ThreaDom ●ThreaDomEx ●EvoDesign ●BindProf ●BindProfX ●SSIPe ●GPCR-I-TASSER ●MAGELLAN ●ResQ ●STRUM ●DAMpred

●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

BioLiP

Structure of PDB 8c91 Chain D Binding Site BS01

Receptor Information
>8c91 Chain D (length=180) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYRAIQV
TTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVEL
FADVKKVDVTGTSKGKGFAGTVKRWNFKGKKMAGQMGNERVTVQSLDVVR
VDAERNLLLVKGAVPGATGSDLIVKPAVKA
Ligand information
>8c91 Chain A (length=2077) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcaccaaacugcgaauaccggagaauguuaucacggg
agacacacggcgggugcuaacguccgucgugaagagggaaacaacccaga
ccgccagcuaaggucccaaagucaugguuaagugggaaacgcggaagaug
uaacggggcuaaaccaugcaccgaagcugcggcagcgacgcuuaugcguu
guuggguaggggagcguucuguaagccugcgaaggugugcugugaggcau
gcuggagguaucagaagugcgaaugcugacauaaguaacgauaaagcggg
ugaaaagcccgcucgccggaagaccaaggguuccuguccaacguuaaucg
gggcagggugagucgaccccuaaggcgaggccgaaaggcguagucgaugg
gaaacagguuaauauuccuguacuugguguuacugcgaaggggggacgga
gaaggcuauguuggccgggcgacgguugucccgguuuaagcguguaggcu
gguuuuccaggcaaauccggaaaaucaaggcugaggcgugaugacgaggc
acuacggugcugaagcaacaaaugcccugcuuccaggaaaagccucuaag
caucagguaacaucaaaucguaccccaaaccgacacagguggucagguag
agaauaccaaggcgcuugagagaacucgggugaaggaacuaggcaaaaug
gugccggcacgcugauauguaggugaggucccucgcggauggagcugaaa
ucagucgaagauaccagcuggcugcaacuguuuauuaaaaacacagcacu
gugcaaacacgaaaguggacguauacggugugacgccuggaauggcguaa
ugauggccaggcugucuccacccgagacucagugaaauugaacucgcugu
gaagaugcaguguacccgcggcaagacggaaaucccuaucugccgugggc
gcuggagaacugaggggggcugcuccuaguacgagaggaccggaguggac
gcaucacugguguucggguugucaugccaauggcacugcccgguagcuaa
augcggaagagauaagugcugaaagcaucuaagcacgaaacuugccccga
gaugaguucucccugacccuuuaaggguccugaaggaacguugaagacga
cgacguugauaggccggguguguaagcgcagcgaugcguugagcuaaccg
guacuaaugaaccgugaggcuuaaccu
<<<<<<<<......<<<<<<<<<<<....<.<<.<<<<<<<<<<<<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>...................<<<<<<.....<<....
.>>....>>>>>>..<<<..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>......<.<.<.<<<<.........>>>>.>>..
.>....<<<<......>>.>>..>>>......>>.>>>>>>>.>>.....
..........<<....>>....>>.........<<<<.....>>>>....
.........>....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<
<<<...<<<<<<......>>>>>>...>.>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
..>..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<......<<.......>>.......>>>>>>.>>>...>>>>>>>
.>...<<<<<<<<<........>>>>>>>>>....<<<......>>>...
<<<<.<<<...<<<(((.....<<<<<<...........<<>>.......
....))).....>>>>>>.>>>...>>>>>>><<<<<<<<<....>>>>>
>>>>....>>>>>><<<<<<<...<<<......<<<<<<<<....>>>>>
>>>...>>>..>>>>>.>>.....>>>>>><......<<.....<<<<<<
.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>
.>>>>>>....((<<<.<<<...<<....<<<....>>>....>>...>>
>..<<<<<........>>>>>))<<<<<<<<<<<<<...<<<<....<<<
<..<<<..<<<<<<<<<<<....(((...>>>>>><<..<<<<...<<<<
<<<<<<<<.<<.....>>>>>>>>>>..>>>>...>>>>...>><..<<<
<<....>>>>>...>>>>>>...>>>...>>>>.........>>>>...>
>....>>>>>>>>>>>.>>>..>>.....<<......>>>>>>>.<<<<.
....>>>>..>>>>..<<<<....<<<<<<<<.<<...............
<<<<..>>>><<<<<<.....<<<...<<<.<....>>>>...>>>...>
>>>>>............<<<<<<<<<..<<<.........>>>..<<<<<
<<.....<<<....>>>.......>>>>>>>.<<<<<......>>>>>..
>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>.....>.....<<<<<.
.......>>>>>..<<<<<<<<.<<<.<<.....>>..>>>>>>>>>>>.
...<<<<<<<...<<<<..<<<<<<<...............>>>>>>>.<
<<<<...<<<<...<<<<<<<<<<<))).>>>>>>..>>>>>...>>>>.
>>>>>...<<<....<<<<.............>>>>....>>>.>>>>..
.....>>>>>>>..<<<<<.....>>>>><....<<..<<<<<.......
>>>>>....<<<<<<<<..<<....<<<<<....>>>>>...>>...>>>
>>.>>>.....>>..>..>>>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8c91 Cryo-EM captures early ribosome assembly in action.
Resolution4.19 Å
Binding residue
(original residue number in PDB)		M11 R13 P23 Q36 K38 D43 Y45 Q49 N58 R59 K62 P63 H67 K70 W80 E81 K114 G115 K116 G117 F118 G120 N126 K157 K159 M161 A162 G163 Q164 N167 R169 T171 S174 V193 P194 A196 K208
Binding residue
(residue number reindexed from 1)		M11 R13 P23 Q36 K38 D43 Y45 Q49 N58 R59 K62 P63 H67 K70 W80 E81 K114 G115 K116 G117 F118 G120 N126 K128 K130 M132 A133 G134 Q135 N138 R140 T142 S145 V164 P165 A167 K179
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
Biological Process
GO:0000027 ribosomal large subunit assembly
GO:0002181 cytoplasmic translation
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8c91, PDBe:8c91, PDBj:8c91
PDBsum8c91
PubMed36797249
UniProtP60438|RL3_ECOLI Large ribosomal subunit protein uL3 (Gene Name=rplC)

[Back to BioLiP]

zhanglabzhanggroup.org | +65-6601-1241 | Computing 1, 13 Computing Drive, Singapore 117417