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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.
MetaCyc:G6468-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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
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)DescriptionActionsGraphical viewLength
ChainiPRO_00001449761 – 586Ribosomal protein S12 methylthiotransferase accessory factor YcaOAdd BLAST586

Proteomic databases

EPDiP75838.
PaxDbiP75838.
PRIDEiP75838.

Interactioni

Subunit structurei

Interacts with the ribosomal small subunit.1 Publication

Protein-protein interaction databases

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

Structurei

Secondary structure

1586
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi13 – 27Combined sources15
Beta strandi31 – 40Combined sources10
Beta strandi43 – 50Combined sources8
Beta strandi53 – 64Combined sources12
Helixi65 – 81Combined sources17
Helixi84 – 86Combined sources3
Helixi92 – 97Combined sources6
Beta strandi107 – 109Combined sources3
Helixi124 – 130Combined sources7
Helixi138 – 140Combined sources3
Turni144 – 146Combined sources3
Turni149 – 151Combined sources3
Beta strandi153 – 160Combined sources8
Turni161 – 163Combined sources3
Beta strandi166 – 170Combined sources5
Helixi171 – 177Combined sources7
Turni178 – 182Combined sources5
Beta strandi183 – 188Combined sources6
Helixi189 – 211Combined sources23
Helixi221 – 224Combined sources4
Helixi228 – 239Combined sources12
Beta strandi244 – 248Combined sources5
Turni251 – 254Combined sources4
Beta strandi257 – 264Combined sources8
Turni265 – 268Combined sources4
Beta strandi269 – 276Combined sources8
Helixi280 – 291Combined sources12
Turni292 – 294Combined sources3
Helixi310 – 314Combined sources5
Helixi316 – 325Combined sources10
Helixi332 – 335Combined sources4
Helixi352 – 365Combined sources14
Beta strandi371 – 375Combined sources5
Beta strandi379 – 386Combined sources8
Turni388 – 390Combined sources3
Helixi398 – 401Combined sources4
Turni404 – 407Combined sources4
Helixi408 – 410Combined sources3
Helixi411 – 415Combined sources5
Turni417 – 419Combined sources3
Helixi424 – 436Combined sources13
Helixi445 – 449Combined sources5
Beta strandi455 – 457Combined sources3
Helixi458 – 460Combined sources3
Helixi464 – 474Combined sources11
Helixi478 – 492Combined sources15
Helixi493 – 495Combined sources3
Helixi498 – 514Combined sources17
Beta strandi517 – 519Combined sources3
Helixi521 – 523Combined sources3
Helixi525 – 532Combined sources8
Helixi534 – 544Combined sources11
Helixi564 – 582Combined sources19

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini60 – 437YcaOPROSITE-ProRule annotationAdd BLAST378

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
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260837. 11 interactors.
DIPiDIP-11470N.
IntActiP75838. 7 interactors.
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.
MetaCyc:G6468-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: November 2, 2016
This is version 112 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.