hyuA: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

hyuA

Gene Synonym(s)

ECK2869, b2873, JW2841, ygeZ[1], ygeZ

Product Desc.

phenylhydantoinase[2][3];

Component of phenylhydantoinase[3]

D-stereospecific phenylhydantoinase; physiological function unknown[4]

Product Synonyms(s)

D-stereospecific phenylhydantoinase[1], B2873[2][1], YgeZ[2][1], HyuA[2][1] , ECK2869, JW2841, ygeZ, b2873

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): hyuA[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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YgeZ is tetrameric. The upstream TTG may be utilized in vivo, although the ATG indicated here is a more likely in vivo start. The overexpressed, N-terminally sequenced protein was synthesized with an artificial RBS for the TTG start. Native protein N-terminus has not been determined. AFMB Structural Genomics target No. 92 (http://afmb.cnrs-mrs.fr/article171.html).[4]



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

hyuA

Mnemonic

Hydantoin-utilizing

Synonyms

ECK2869, b2873, JW2841, ygeZ[1], ygeZ

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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

64.83 minutes 

MG1655: 3008050..3009435
<gbrowseImage> name=NC_000913:3008050..3009435 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2895783..2897168
<gbrowseImage> name=NC_012967:2895783..2897168 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2895198..2896583
<gbrowseImage> name=NC_012759:2895198..2896583 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3008684..3010069
<gbrowseImage> name=NC_007779:3008684..3010069 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3101920..3103305
<gbrowseImage> name=NC_010473:3101920..3103305 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
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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

ΔhyuA (Keio:JW2841)

deletion

deletion

PMID:16738554

Shigen
CGSC10209[5]

ΔhyuA724::kan

PMID:16738554

CGSC:101510


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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

JW2841

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCGCGTATTGATCAAAAACGG

Primer 2:CCGAGCACGGGAGGGACAAACGG

10D8

Kohara Phage

Genobase

PMID:3038334

6A1

Kohara Phage

Genobase

PMID:3038334

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[5]

est. P1 cotransduction: 6% [6]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[5]

est. P1 cotransduction: % [6]
Synonyms:zgd-210::Tn10, zgf-210::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:G7492

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13056

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004055

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947359

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2868

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009436

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

HyuA

Synonyms

D-stereospecific phenylhydantoinase[1], B2873[2][1], YgeZ[2][1], HyuA[2][1] , ECK2869, JW2841, ygeZ, b2873

Product description

phenylhydantoinase[2][3];

Component of phenylhydantoinase[3]

D-stereospecific phenylhydantoinase; physiological function unknown[4]

EC number (for enzymes)
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Notes

HyuA will also hydrolyze hydantoin, but the activity on that substrate is lower than hydrolysis of Phenylhydantoin.jpg, which is a hydantoin derivative with an aromatic side chain at the 5′ position.[7]

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:0005737

cytoplasm

PMID:16397293

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from Riley et al 2006 [1].


Missing: with/from

GO:0016812

hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides

PMID:11092864

IDA: Inferred from Direct Assay

F

complete

GO:0016812

hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01644

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

Subunits of phenylhydantoinase

Protein

ydcW

PMID:16606699

Experiment(s):EBI-1144172

Protein

groL

PMID:16606699

Experiment(s):EBI-1144172

Protein

self

homotetramer

PMID:11092864

gel-filtration

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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
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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 

MEFAMRVLIK NGTVVNADGQ AKQDLLIESG IVRQLGNNIS PQLPYEEIDA TGCYVFPGGV
DVHTHFNIDV GIARSCDDFF TGTRAAACGG TTTIIDHMGF GPNGCRLRHQ LEVYRGYAAH
KAVIDYSFHG VIQHINHAIL DEIPMIVEEG LSSFKLYLTY QYKLNDDEVL QALRRLHESG
ALTTVHPEND AAIASKRAEF IAAGLTAPRY HALSRPLECE AEAIARMINL AQIAGNAPLY
IVHLSNGLGL DYLRLARANH QPVWVETCPQ YLLLDERSYD TEDGMKFILS PPLRNVREQD
KLWCGISDGA IDVVATDHCT FSMAQRLQIS KGDFSRCPNG LPGVENRMQL LFSSGVMTGR
ITPERFVELT SAMPARLFGL WPQKGLLAPG SDGDVVIIDP RQSQQIQHRH LHDNADYSPW
EGFTCQGAIV RTLSRGETIF CDGTFTGKAG RGRFLRRKPF VPPVL
Length

465

Mol. Wt

51.504 kDa

pI

6.6 (calculated)

Extinction coefficient

42,860 - 44,235 (calc based on 14 Y, 4 W, and 11 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

Domain

50..279

PF01979 Amidohydrolase family

PMID:19920124

Domain

289..395

PF01979 Amidohydrolase family

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=hyuA 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

Purification protocol

PMID:11092864

Antibody

PMID:11092864

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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:90111504

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947359

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009436

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:Q46806

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7492

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13056

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947359

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004055

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2868

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Ecoli K-12

0.859+/-0.229

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.001444043

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

1a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

2a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

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)

hyuA

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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_000913:3008030..3008070 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:b2873 (EcoliWiki Page)

NCBI GEO profiles for hyuA

microarray

GenExpDB:b2873 (EcoliWiki Page)

Summary of data for hyuA 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
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Notes

Accessions Related to hyuA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G7492

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2868

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2873

EcoGene

EcoGene:EG13056

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004055

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009436

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

  • ENSANGP00000003198 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000025590 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G12200 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000029176 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000014091 (score: 0.419)
  • ENSBTAP00000024720 (score: 0.408)
  • ENSBTAP00000024448 (score: 0.360)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00040591 (score: 1.000; bootstrap: 99%)
  • WBGene00026309 (score: 0.623)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000963 (score: 1.000; bootstrap: 100%)
  • WBGene00000964 (score: 0.645)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000000958 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000023262 (score: 0.441)
  • ENSCAFP00000012901 (score: 0.437)
  • ENSCAFP00000009892 (score: 0.430)
  • ENSCAFP00000016338 (score: 0.401)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000001663 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-050720-2 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-031105-1 (score: 0.669)
  • ZDB-GENE-050720-1 (score: 0.607)
  • ZDB-GENE-050720-3 (score: 0.487)
  • ZDB-GENE-030131-3136 (score: 0.321)
  • ZDB-GENE-050720-4 (score: 0.320)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0191172 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0023023 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA12765-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000025858 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000030864 (score: 0.440)
  • ENSGALP00000012246 (score: 0.430)
  • ENSGALP00000024212 (score: 0.423)
  • ENSGALP00000032328 (score: 0.374)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000276651 (score: 1.000; bootstrap: 100%)
  • ENSP00000309539 (score: 0.448)
  • ENSP00000343690 (score: 0.441)
  • ENSP00000342995 (score: 0.436)
  • ENSP00000288699 (score: 0.411)
  • ENSP00000339850 (score: 0.406)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000014094 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000025706 (score: 0.435)
  • ENSMMUP00000025935 (score: 0.415)
  • ENSMMUP00000029435 (score: 0.400)
  • ENSMMUP00000016692 (score: 0.354)
  • ENSMMUP00000025346 (score: 0.204)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000006711 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000012522 (score: 0.448)
  • ENSMODP00000002154 (score: 0.445)
  • ENSMODP00000019661 (score: 0.418)
  • ENSMODP00000020822 (score: 0.387)
  • ENSMODP00000021184 (score: 0.121)

From Inparanoid:20070104

Mus musculus

  • MGI:1928679 (score: 1.000; bootstrap: 100%)
  • MGI:1349762 (score: 0.433)
  • MGI:1349763 (score: 0.430)
  • MGI:107793 (score: 0.421)
  • MGI:1349764 (score: 0.394)
  • MGI:1929772 (score: 0.394)

From Inparanoid:20070104

Oryza gramene

  • Q5VR53 (score: 1.000; bootstrap: 100%)
  • Q94J90 (score: 0.981)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000029707 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000034408 (score: 0.688)
  • ENSPTRP00000005402 (score: 0.655)
  • ENSPTRP00000020178 (score: 0.342)
  • ENSPTRP00000035055 (score: 0.313)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000006004 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000012996 (score: 0.444)
  • ENSRNOP00000025880 (score: 0.439)
  • ENSRNOP00000041593 (score: 0.430)
  • ENSRNOP00000029334 (score: 0.409)
  • ENSRNOP00000012274 (score: 0.402)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000130744 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000136567 (score: 0.442)
  • NEWSINFRUP00000153961 (score: 0.415)
  • NEWSINFRUP00000149349 (score: 0.414)
  • NEWSINFRUP00000142327 (score: 0.414)
  • NEWSINFRUP00000143556 (score: 0.414)
  • NEWSINFRUP00000140077 (score: 0.393)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00015639001 (score: 1.000; bootstrap: 99%)
  • GSTENP00007032001 (score: 0.411)
  • GSTENP00035427001 (score: 0.391)
  • GSTENP00035726001 (score: 0.380)
  • GSTENP00033035001 (score: 0.340)
  • GSTENP00035429001 (score: 0.101)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000009450 (score: 1.000; bootstrap: 99%)
  • ENSXETP00000008801 (score: 0.253)
  • ENSXETP00000050910 (score: 0.189)
  • ENSXETP00000002654 (score: 0.182)

From Inparanoid:20070104

E. coli O157

Z4212

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)

PF01979 Amidohydrolase family

Pfam (EcoliWiki Page)

PF01979 Amidohydrolase family

Superfamily (EcoliWiki Page)

SUPERFAMILY:51338

Superfamily (EcoliWiki Page)

SUPERFAMILY:51556

Panther (EcoliWiki Page)

PTHR11647:SF44

EcoCyc

EcoCyc:G7492

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13056

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004055

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2868

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009436

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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 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 2.7 2.8 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 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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. ↑ Kim, GJ et al. (2000) Functional expression and characterization of the two cyclic amidohydrolase enzymes, allantoinase and a novel phenylhydantoinase, from Escherichia coli. J. Bacteriol. 182 7021-8 PubMed

Categories

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