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Protein

Uncharacterized protein YbiB

Gene

ybiB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • DNA binding Source: EcoCyc
  • RNA binding Source: EcoCyc
  • transferase activity, transferring glycosyl groups Source: UniProtKB-KW

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Glycosyltransferase, Transferase

Enzyme and pathway databases

BioCyciEcoCyc:EG11580-MONOMER.
ECOL316407:JW0785-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Uncharacterized protein YbiB
Gene namesi
Name:ybiB
Ordered Locus Names:b0800, JW0785
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11580. ybiB.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 320320Uncharacterized protein YbiBPRO_0000154530Add
BLAST

Proteomic databases

EPDiP30177.
PaxDbiP30177.
PRIDEiP30177.

Interactioni

Protein-protein interaction databases

BioGridi4259965. 9 interactions.
DIPiDIP-11425N.
IntActiP30177. 10 interactions.
STRINGi511145.b0800.

Structurei

Secondary structure

1
320
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 108Combined sources
Helixi22 – 3312Combined sources
Helixi39 – 5214Combined sources
Helixi56 – 6712Combined sources
Beta strandi83 – 875Combined sources
Beta strandi91 – 944Combined sources
Helixi98 – 10811Combined sources
Beta strandi112 – 1165Combined sources
Helixi126 – 1327Combined sources
Helixi141 – 1499Combined sources
Beta strandi154 – 1574Combined sources
Helixi158 – 1614Combined sources
Helixi163 – 1708Combined sources
Helixi172 – 1754Combined sources
Helixi180 – 1845Combined sources
Helixi185 – 1873Combined sources
Beta strandi195 – 20410Combined sources
Helixi205 – 2073Combined sources
Helixi208 – 21811Combined sources
Beta strandi222 – 2265Combined sources
Beta strandi231 – 2333Combined sources
Beta strandi242 – 2465Combined sources
Beta strandi249 – 2546Combined sources
Helixi271 – 28111Combined sources
Turni282 – 2843Combined sources
Helixi290 – 30213Combined sources
Helixi309 – 31911Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4MUOX-ray1.94A/B1-320[»]
ProteinModelPortaliP30177.
SMRiP30177. Positions 1-320.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4108MTB. Bacteria.
COG0547. LUCA.
HOGENOMiHOG000264819.
InParanoidiP30177.
OMAiEVTARWI.
OrthoDBiEOG6QP119.
PhylomeDBiP30177.

Family and domain databases

Gene3Di3.40.1030.10. 1 hit.
InterProiIPR000312. Glycosyl_Trfase_fam3.
IPR017459. Glycosyl_Trfase_fam3_N_dom.
[Graphical view]
PfamiPF02885. Glycos_trans_3N. 1 hit.
[Graphical view]
SUPFAMiSSF47648. SSF47648. 1 hit.
SSF52418. SSF52418. 1 hit.

Sequencei

Sequence statusi: Complete.

P30177-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDYRKIIKEI GRGKNHARDL DRDTARGLYA HMLNGEVPDL ELGGVLIALR
60 70 80 90 100
IKGEGEAEML GFYEAMQNHT IKLTPPAGKP MPIVIPSYNG ARKQANLTPL
110 120 130 140 150
LAILLHKLGF PVVVHGVSED PTRVLTETIF ELMGITPTLH GGQAQAKLDE
160 170 180 190 200
HQPVFMPVGA FCPPLEKQLA MRWRMGVRNS AHTLAKLATP FAEGEALRLS
210 220 230 240 250
SVSHPEYIGR VAKFFSDIGG RALLMHGTEG EVYANPQRCP QINLIDREGM
260 270 280 290 300
RVLYEKQDTA GSELLPQAKD PETTAQWIER CLAGSEPIPE SLKIQMACCL
310 320
VATGEAATIS DGLARVNQAF
Length:320
Mass (Da):35,049
Last modified:April 1, 1993 - v1
Checksum:i81B2A731E0C12390
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L02123 Genomic DNA. Translation: AAA53656.1.
U00096 Genomic DNA. Translation: AAC73887.1.
AP009048 Genomic DNA. Translation: BAA35466.1.
PIRiH64816.
RefSeqiNP_415321.1. NC_000913.3.
WP_000386551.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73887; AAC73887; b0800.
BAA35466; BAA35466; BAA35466.
GeneIDi945424.
KEGGiecj:JW0785.
eco:b0800.
PATRICi32116803. VBIEscCol129921_0827.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L02123 Genomic DNA. Translation: AAA53656.1.
U00096 Genomic DNA. Translation: AAC73887.1.
AP009048 Genomic DNA. Translation: BAA35466.1.
PIRiH64816.
RefSeqiNP_415321.1. NC_000913.3.
WP_000386551.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4MUOX-ray1.94A/B1-320[»]
ProteinModelPortaliP30177.
SMRiP30177. Positions 1-320.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259965. 9 interactions.
DIPiDIP-11425N.
IntActiP30177. 10 interactions.
STRINGi511145.b0800.

Proteomic databases

EPDiP30177.
PaxDbiP30177.
PRIDEiP30177.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73887; AAC73887; b0800.
BAA35466; BAA35466; BAA35466.
GeneIDi945424.
KEGGiecj:JW0785.
eco:b0800.
PATRICi32116803. VBIEscCol129921_0827.

Organism-specific databases

EchoBASEiEB1540.
EcoGeneiEG11580. ybiB.

Phylogenomic databases

eggNOGiENOG4108MTB. Bacteria.
COG0547. LUCA.
HOGENOMiHOG000264819.
InParanoidiP30177.
OMAiEVTARWI.
OrthoDBiEOG6QP119.
PhylomeDBiP30177.

Enzyme and pathway databases

BioCyciEcoCyc:EG11580-MONOMER.
ECOL316407:JW0785-MONOMER.

Miscellaneous databases

PROiP30177.

Family and domain databases

Gene3Di3.40.1030.10. 1 hit.
InterProiIPR000312. Glycosyl_Trfase_fam3.
IPR017459. Glycosyl_Trfase_fam3_N_dom.
[Graphical view]
PfamiPF02885. Glycos_trans_3N. 1 hit.
[Graphical view]
SUPFAMiSSF47648. SSF47648. 1 hit.
SSF52418. SSF52418. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of the rhlE gene of Escherichia coli."
    Ohmori H.
    Jpn. J. Genet. 69:1-12(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "A role of RnlA in the RNase LS activity from Escherichia coli."
    Otsuka Y., Koga M., Iwamoto A., Yonesaki T.
    Genes Genet. Syst. 82:291-299(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-9.
    Strain: K12.

Entry informationi

Entry nameiYBIB_ECOLI
AccessioniPrimary (citable) accession number: P30177
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: April 1, 1993
Last modified: July 6, 2016
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, 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

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.