Structure of PDB 2ykr Chain R Binding Site BS01

Receptor Information
>2ykr Chain R (length=55) Species: 668369 (Escherichia coli DH5[alpha]) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLP
YTDRH
Ligand information
>2ykr Chain A (length=1533) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aauugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaa
cacaugcaagucgaacgguaacaggaagaagcuugcuucuuugcugacga
guggcggacgggugaguaaugucugggaaacugccugauggagggggaua
acuacuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagagg
gggaccuucgggccucuugccaucggaugugcccagaugggauuagcuag
uaggugggguaacggcucaccuaggcgacgaucccuagcuggucugagag
gaugaccagccacacuggaacugagacacgguccagacuccuacgggagg
cagcaguggggaauauugcacaaugggcgcaagccugaugcagccaugcc
gcguguaugaagaaggccuucggguuguaaaguacuuucagcggggagga
agggaguaaaguuaauaccuuugcucauugacguuacccgcagaagaagc
accggcuaacuccgugccagcagccgcgguaauacggagggugcaagcgu
uaaucggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucag
augugaaauccccgggcucaaccugggaacugcaucugauacuggcaagc
uugagucucguagagggggguagaauuccagguguagcggugaaaugcgu
agagaucuggaggaauaccgguggcgaaggcggcccccuggacgaagacu
gacgcucaggugcgaaagcguggggagcaaacaggauuagauacccuggu
aguccacgccguaaacgaugucgacuuggagguugugcccuugaggcgug
gcuuccggagcuaacgcguuaagucgaccgccuggggaguacggccgcaa
gguuaaaacucaaaugaauugacgggggcccgcacaagcgguggagcaug
ugguuuaauucgaugcaacgcgaagaaccuuaccuggucuugacauccac
ggaaguuuucagagaugagaaugugccuucgggaaccgugagacaggugc
ugcauggcugucgucagcucguguugugaaauguuggguuaagucccgca
acgagcgcaacccuuauccuuuguugccagcgguccggccgggaacucaa
aggagacugccagugauaaacuggaggaagguggggaugacgucaaguca
ucauggcccuuacgaccagggcuacacacgugcuacaauggcgcauacaa
agagaagcgaccucgcgagagcaagcggaccucauaaagugcgucguagu
ccggauuggagucugcaacucgacuccaugaagucggaaucgcuaguaau
cguggaucagaaugccacggugaauacguucccgggccuuguacacaccg
cccgucacaccaugggaguggguugcaaaagaaguagguagcuuaaccuu
cgggagggcgcuuaccacuuugugauucaugacuggggugaagucguaac
aagguaaccguaggggaaccugcgguuggauca
.......<<<<..[.(((..>>>>......<<<<<..<<<<<........
<<..<<...........<....<.....................>..>..
...........<..........<<<<........<<<<<...<.<.....
.<<............>>.......>.>....................<<.
.....<....>....>>....>>>>>......>>>>..<<<.........
.<<<<.............>>>>..........>>>..<<<<..<<....>
>.....>>>>..>..<<<<............>>>>...............
...>>.>>.........<<.....<<<<....>>>>...>>......>>>
>>.............<<<....>>>...............<<<<<.....
.<.........................>........>>>>>.......<<
<<<(((...<<<<.........)))..........>>>>>>>>>..>>>>
>.................((......<<<...<......<..<.<<...<
<<<........<<<<.......>>>>......>>>>.....>>>..>...
...<<<<<<.....<<<<<......<.<.<.<..................
.....>.>.>..>..........<<....>>...>>>>>....>>.>>>>
.....>...>>>.....<<<<<.....<....<.............>...
.>..>>>>>..........<<<<<<..<<<<<<<<<<.........>>>>
>>>>>>...<<..))>>.....>>>>>>.....<<........<......
..>......>>...))).]..<...<<<<<<<.....<<<....<<<<<<
<...............................<<<<<<........<<<<
<.......<<<....>>>.......<<....>>...>>>>.>..<<<.<<
<..<.<<<........<<<<<<<<......>>....<........>....
>>>>>>............<<<..........<<.....>>.........>
>>.........<<<.....>>>........................>...
>>.>>>>>>>....>>>>>>.......>>>>>>>......<<.<......
.<<<..<<...<<<....>>>...>>....>>>.......>.>>......
......<<<<<.<........>.>>>>>............>>>.....<<
<..<...........>..>>>...........>>>>>>>..>........
.......<<<<.<.......<<<<<........<<.......<<..<<..
..>>.>>......>>.......>>>>>.......>.>>>>..........
.....<<<<<<<<<....>>>>>>>>>......
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]
PDB2ykr Structural Basis for the Function of a Small Gtpase Rsga on the 30S Ribosomal Subunit Maturation Revealed by Cryoelectron Microscopy.
Resolution9.8 Å
Binding residue
(original residue number in PDB)		S35 G36 K37 I38 V39 P40 S41 R47 A48 K49 Q51 R52 Q53 R56 K59 R60 Y63 Y69 T70 D71 R72 H73
Binding residue
(residue number reindexed from 1)		S17 G18 K19 I20 V21 P22 S23 R29 A30 K31 Q33 R34 Q35 R38 K41 R42 Y45 Y51 T52 D53 R54 H55
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:2ykr, PDBe:2ykr, PDBj:2ykr
PDBsum2ykr
PubMed21788480
UniProtP0A7T7|RS18_ECOLI Small ribosomal subunit protein bS18 (Gene Name=rpsR)

[Back to BioLiP]