ushA:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

ushA

Gene Synonym(s)

ECK0474, b0480, JW0469[1], JW0469

Product Desc.

USHA[2][3]

UDP-glucose hydrolase and 5'-nucleotidase; bifunctional periplasmic enzyme; monomeric[4]

Product Synonyms(s)

bifunctional UDP-sugar hydrolase and 5'-nucleotidase[1], B0480[2][1], UshA[2][1] , ECK0474, JW0469, b0480

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ushA[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

ushA

Mnemonic

UDP sugar hydrolase

Synonyms

ECK0474, b0480, JW0469[1], JW0469

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

10.87 minutes 

MG1655: 504138..505790
<gbrowseImage> name=NC_000913:504138..505790 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 476981..478633
<gbrowseImage> name=NC_012967:476981..478633 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 406897..408549
<gbrowseImage> name=NC_012759:406897..408549 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 504138..505790
<gbrowseImage> name=NC_007779:504138..505790 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 443469..445121
<gbrowseImage> name=NC_010473:443469..445121 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

504213

Edman degradation

PMID:3012467
PMID:9298646


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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ushA (Keio:JW0469)

deletion

deletion

PMID:16738554

Shigen

CGSC8621[5]

ushA1

CGSC:8767

ushA763(del)::kan

PMID:16738554

CGSC:103332


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW0469

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAATTATTGCAGCGGGGCGT

Primer 2:CCCTGCCAGCTCACCTCACCTTT

4B10

Kohara Phage

Genobase

PMID:3038334

7C12

Kohara Phage

Genobase

PMID:3038334

gsk-3055::Tn10

Linked marker

CAG12154 = CGSC7341[5]

est. P1 cotransduction: 90% [6]
Synonyms:zbb-30-55::TnlO, zba-3055::Tn10

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[5]

est. P1 cotransduction: 11% [6]
Synonyms:purE79::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG11060

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11060

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001049

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947331

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1053

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001668

Escherichia coli str. K-12 substr. MG1655

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Notes

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

UshA

Synonyms

bifunctional UDP-sugar hydrolase and 5'-nucleotidase[1], B0480[2][1], UshA[2][1] , ECK0474, JW0469, b0480

Product description

USHA[2][3]

UDP-glucose hydrolase and 5'-nucleotidase; bifunctional periplasmic enzyme; monomeric[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006146

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0008253

5'-nucleotidase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.1.3.5

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0862

F

Seeded from EcoCyc (v14.0)

complete

GO:0008768

UDP-sugar diphosphatase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.6.1.45

F

Seeded from EcoCyc (v14.0)

complete

GO:0009166

nucleotide catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006179

P

Seeded from EcoCyc (v14.0)

complete

GO:0009166

nucleotide catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008334

P

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004843

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006179

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008334

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016788

hydrolase activity, acting on ester bonds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006146

F

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0574

C

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0200

C

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006146

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

yefI

PMID:16606699

Experiment(s):EBI-1136836

Protein

pncB

PMID:16606699

Experiment(s):EBI-1136836

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1136836

Protein

htpG

PMID:16606699

Experiment(s):EBI-1136836
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

periplasm

From EcoCyc[3]

Periplasm

PMID:9298646

EchoLocation:ushA


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MKLLQRGVAL ALLTTFTLAS ETALAYEQDK TYKITVLHTN DHHGHFWRNE YGEYGLAAQK
TLVDGIRKEV AAEGGSVLLL SGGDINTGVP ESDLQDAEPD FRGMNLVGYD AMAIGNHEFD
NPLTVLRQQE KWAKFPLLSA NIYQKSTGER LFKPWALFKR QDLKIAVIGL TTDDTAKIGN
PEYFTDIEFR KPADEAKLVI QELQQTEKPD IIIAATHMGH YDNGEHGSNA PGDVEMARAL
PAGSLAMIVG GHSQDPVCMA AENKKQVDYV PGTPCKPDQQ NGIWIVQAHE WGKYVGRADF
EFRNGEMKMV NYQLIPVNLK KKVTWEDGKS ERVLYTPEIA ENQQMISLLS PFQNKGKAQL
EVKIGETNGR LEGDRDKVRF VQTNMGRLIL AAQMDRTGAD FAVMSGGGIR DSIEAGDISY
KNVLKVQPFG NVVVYADMTG KEVIDYLTAV AQMKPDSGAY PQFANVSFVA KDGKLNDLKI
KGEPVDPAKT YRMATLNFNA TGGDGYPRLD NKPGYVNTGF IDAEVLKAYI QKSSPLDVSV
YEPKGEVSWQ
Length

550

Mol. Wt

60.824 kDa

pI

5.5 (calculated)

Extinction coefficient

69,790 - 70,040 (calc based on 21 Y, 7 W, and 2 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

motif

1-25

UniProt Manual:Signal Peptides

UniProt:P07024

Domain

363..511

PF02872 5'-nucleotidase, C-terminal domain

PMID:19920124

Domain

34..256

PF00149 Calcineurin-like phosphoesterase

PMID:19920124

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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=ushA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16128464

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947331

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001668

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P07024

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11060

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11060

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947331

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001049

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1053

Escherichia coli str. K-12 substr. MG1655

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Notes

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

2.89E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

484

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

512

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

463

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

ushA

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:504118..504158 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0480 (EcoliWiki Page)

NCBI GEO profiles for ushA

microarray

GenExpDB:b0480 (EcoliWiki Page)

Summary of data for ushA from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (503849..504160) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ15; Well:H2[7]

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Notes

Accessions Related to ushA Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG11060

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1053

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0480

EcoGene

EcoGene:EG11060

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001049

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001668

Escherichia coli str. K-12 substr. MG1655

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000011828 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000008588 (score: 0.281)
  • ENSANGP00000018163 (score: 0.278)
  • ENSANGP00000029411 (score: 0.218)
  • ENSANGP00000007549 (score: 0.217)
  • ENSANGP00000012716 (score: 0.166)
  • ENSANGP00000016300 (score: 0.166)
  • ENSANGP00000015382 (score: 0.161)
  • ENSANGP00000007063 (score: 0.160)
  • ENSANGP00000027438 (score: 0.159)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000035336 (score: 1.000; bootstrap: 100%)
  • ENSAPMP00000006320 (score: 0.235)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000015059 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000004456 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000008309 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-CDNA-040425-2194 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040426-1261 (score: 0.993)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0050104 (score: 1.000; bootstrap: 81%)
  • FBgn0034225 (score: 0.587)
  • FBgn0050103 (score: 0.333)
  • FBgn0030264 (score: 0.205)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA15652-PA (score: 1.000; bootstrap: 100%)
  • GA18461-PA (score: 0.622)
  • GA15651-PA (score: 0.353)
  • GA15154-PA (score: 0.209)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000025482 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000257770 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007198 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000022892 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:99782 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000031424 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000015057 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000157219 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000161515 (score: 0.462)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00003971001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000039288 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

USHA

From SHIGELLACYC

E. coli O157

USHA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Pfam (EcoliWiki Page)

PF00149 Calcineurin-like phosphoesterase

Pfam (EcoliWiki Page)

PF02872 5'-nucleotidase, C-terminal domain

Panther (EcoliWiki Page)

PTHR11575:SF7

Superfamily (EcoliWiki Page)

SUPERFAMILY:55816

Superfamily (EcoliWiki Page)

SUPERFAMILY:56300

EcoCyc

EcoCyc:EG11060

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11060

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001049

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1053

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001668

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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