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Protein

Ribosomal protein S12 methylthiotransferase accessory factor YcaO

Gene

ycaO

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Involved in beta-methylthiolation of ribosomal protein S12.1 Publication

GO - Molecular functioni

  • ATP diphosphatase activity Source: EcoCyc
  • magnesium ion binding Source: EcoCyc

GO - Biological processi

  • peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid Source: EcoCyc
Complete GO annotation...

Enzyme and pathway databases

BioCyciEcoCyc:G6468-MONOMER.
ECOL316407:JW0888-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal protein S12 methylthiotransferase accessory factor YcaO
Gene namesi
Name:ycaO
Ordered Locus Names:b0905, JW0888
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13699. ycaO.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

Mutant shows a decrease in the ratio of methylthiolated to unmodified S12 and a decrease in transcription of a subset of genes.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 586586Ribosomal protein S12 methylthiotransferase accessory factor YcaOPRO_0000144976Add
BLAST

Proteomic databases

EPDiP75838.
PaxDbiP75838.
PRIDEiP75838.

Interactioni

Subunit structurei

Interacts with the ribosomal small subunit.1 Publication

Protein-protein interaction databases

BioGridi4260837. 11 interactions.
DIPiDIP-11470N.
IntActiP75838. 7 interactions.
MINTiMINT-1240855.
STRINGi511145.b0905.

Structurei

Secondary structure

1
586
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi13 – 2715Combined sources
Beta strandi31 – 4010Combined sources
Beta strandi43 – 508Combined sources
Beta strandi53 – 6412Combined sources
Helixi65 – 8117Combined sources
Helixi84 – 863Combined sources
Helixi92 – 976Combined sources
Beta strandi107 – 1093Combined sources
Helixi124 – 1307Combined sources
Helixi138 – 1403Combined sources
Turni144 – 1463Combined sources
Turni149 – 1513Combined sources
Beta strandi153 – 1608Combined sources
Turni161 – 1633Combined sources
Beta strandi166 – 1705Combined sources
Helixi171 – 1777Combined sources
Turni178 – 1825Combined sources
Beta strandi183 – 1886Combined sources
Helixi189 – 21123Combined sources
Helixi221 – 2244Combined sources
Helixi228 – 23912Combined sources
Beta strandi244 – 2485Combined sources
Turni251 – 2544Combined sources
Beta strandi257 – 2648Combined sources
Turni265 – 2684Combined sources
Beta strandi269 – 2768Combined sources
Helixi280 – 29112Combined sources
Turni292 – 2943Combined sources
Helixi310 – 3145Combined sources
Helixi316 – 32510Combined sources
Helixi332 – 3354Combined sources
Helixi352 – 36514Combined sources
Beta strandi371 – 3755Combined sources
Beta strandi379 – 3868Combined sources
Turni388 – 3903Combined sources
Helixi398 – 4014Combined sources
Turni404 – 4074Combined sources
Helixi408 – 4103Combined sources
Helixi411 – 4155Combined sources
Turni417 – 4193Combined sources
Helixi424 – 43613Combined sources
Helixi445 – 4495Combined sources
Beta strandi455 – 4573Combined sources
Helixi458 – 4603Combined sources
Helixi464 – 47411Combined sources
Helixi478 – 49215Combined sources
Helixi493 – 4953Combined sources
Helixi498 – 51417Combined sources
Beta strandi517 – 5193Combined sources
Helixi521 – 5233Combined sources
Helixi525 – 5328Combined sources
Helixi534 – 54411Combined sources
Helixi564 – 58219Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4Q84X-ray2.64A/B1-586[»]
4Q85X-ray3.29A/B/C/D/E/F/G/H1-586[»]
4Q86X-ray2.25A/B/C/D/E/F/G/H1-586[»]
ProteinModelPortaliP75838.
SMRiP75838. Positions 2-584.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini60 – 437378YcaOPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 YcaO domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4105DDY. Bacteria.
COG1944. LUCA.
HOGENOMiHOG000276724.
InParanoidiP75838.
KOiK09136.
OMAiEFVEWDF.

Family and domain databases

InterProiIPR003776. YcaO-like_dom.
[Graphical view]
PfamiPF02624. YcaO. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00702. TIGR00702. 1 hit.
PROSITEiPS51664. YCAO. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P75838-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQTFIPGKD AALEDSIARF QQKLSDLGFQ IEEASWLNPV PNVWSVHIRD
60 70 80 90 100
KECALCFTNG KGATKKAALA SALGEYFERL STNYFFADFW LGETIANGPF
110 120 130 140 150
VHYPNEKWFP LTENDDVPEG LLDDRLRAFY DPENELTGSM LIDLQSGNED
160 170 180 190 200
RGICGLPFTR QSDNQTVYIP MNIIGNLYVS NGMSAGNTRN EARVQGLSEV
210 220 230 240 250
FERYVKNRII AESISLPEIP ADVLARYPAV VEAIETLEAE GFPIFAYDGS
260 270 280 290 300
LGGQYPVICV VLFNPANGTC FASFGAHPDF GVALERTVTE LLQGRGLKDL
310 320 330 340 350
DVFTPPTFDD EEVAEHTNLE THFIDSSGLI SWDLFKQDAD YPFVDWNFSG
360 370 380 390 400
TTEEEFATLM AIFNKEDKEV YIADYEHLGV YACRIIVPGM SDIYPAEDLW
410 420 430 440 450
LANNSMGSHL RETILSLPGS EWEKEDYLNL IEQLDEEGFD DFTRVRELLG
460 470 480 490 500
LATGSDNGWY TLRIGELKAM LALAGGDLEQ ALVWTEWTME FNSSVFSPER
510 520 530 540 550
ANYYRCLQTL LLLAQEEDRQ PLQYLNAFVR MYGADAVEAA SAAMSGEAAF
560 570 580
YGLQPVDSDL HAFAAHQSLL KAYEKLQRAK AAFWAK
Length:586
Mass (Da):65,652
Last modified:December 15, 1998 - v2
Checksum:i44CD903F9E73F503
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73991.2.
AP009048 Genomic DNA. Translation: BAA35640.2.
PIRiH64829.
RefSeqiNP_415425.4. NC_000913.3.
WP_001295344.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73991; AAC73991; b0905.
BAA35640; BAA35640; BAA35640.
GeneIDi945509.
KEGGiecj:JW0888.
eco:b0905.
PATRICi32117023. VBIEscCol129921_0936.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73991.2.
AP009048 Genomic DNA. Translation: BAA35640.2.
PIRiH64829.
RefSeqiNP_415425.4. NC_000913.3.
WP_001295344.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4Q84X-ray2.64A/B1-586[»]
4Q85X-ray3.29A/B/C/D/E/F/G/H1-586[»]
4Q86X-ray2.25A/B/C/D/E/F/G/H1-586[»]
ProteinModelPortaliP75838.
SMRiP75838. Positions 2-584.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260837. 11 interactions.
DIPiDIP-11470N.
IntActiP75838. 7 interactions.
MINTiMINT-1240855.
STRINGi511145.b0905.

Proteomic databases

EPDiP75838.
PaxDbiP75838.
PRIDEiP75838.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73991; AAC73991; b0905.
BAA35640; BAA35640; BAA35640.
GeneIDi945509.
KEGGiecj:JW0888.
eco:b0905.
PATRICi32117023. VBIEscCol129921_0936.

Organism-specific databases

EchoBASEiEB3463.
EcoGeneiEG13699. ycaO.

Phylogenomic databases

eggNOGiENOG4105DDY. Bacteria.
COG1944. LUCA.
HOGENOMiHOG000276724.
InParanoidiP75838.
KOiK09136.
OMAiEFVEWDF.

Enzyme and pathway databases

BioCyciEcoCyc:G6468-MONOMER.
ECOL316407:JW0888-MONOMER.

Miscellaneous databases

PROiP75838.

Family and domain databases

InterProiIPR003776. YcaO-like_dom.
[Graphical view]
PfamiPF02624. YcaO. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00702. TIGR00702. 1 hit.
PROSITEiPS51664. YCAO. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYCAO_ECOLI
AccessioniPrimary (citable) accession number: P75838
Secondary accession number(s): Q9R2W0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 15, 1998
Last modified: September 7, 2016
This is version 110 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.