hemA: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

gtrA

Gene Synonym(s)

ECK1198, b1210, JW1201, gtrA, hemA[1], gtrA, ECK2344, JW2346, yfdG, b2350

Product Desc.

GLUTRNAREDUCT;

Component of glutamyl-tRNA reductase

Glutamyl-tRNA reductase, hemin biosynthesis; neomycin sensitivity

Product Synonyms(s)

glutamyl tRNA reductase, B1210, GtrA, GtrA , ECK1198, gtrA, JW1201, b1210, ECK2344, JW2346, yfdG, b2350, HemA

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): gtrA[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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gtrA is also the canonical name for a gene.



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

gtrA

Mnemonic
Synonyms

ECK2344, b2350, JW2346, yfdG

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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

53.15 minutes 

MG1655: 2465877..2466239
<gbrowseImage> name=NC_000913:2465877..2466239 source=MG1655 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2473301..2473663
<gbrowseImage> name=NC_007779:2473301..2473663 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2557642..2558004
<gbrowseImage> name=NC_010473:2557642..2558004 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

ΔyfdG (Keio:JW2346)

deletion

deletion

PMID:16738554

Shigen
CGSC9878[3]

ΔyfdG757::kan

PMID:16738554

CGSC:104706


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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

JW2346

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTTAAAGCTATTTGCAAAGTA

Primer 2:CCTTTCGCATCCCTAAAGACAAT

6F7

Kohara Phage

Genobase

PMID:3038334

3A11

Kohara Phage

Genobase

PMID:3038334

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[3]

est. P1 cotransduction: 1% [4]
Synonyms:zej-223::Tn10

zfd-1::Tn10

Linked marker

CAG18467 = CGSC7408[3]

est. P1 cotransduction: 38% [4]
Synonyms:zfb-1::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:G7219

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14131

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003794

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3883

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007761

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

HemA

Synonyms

glutamyl tRNA reductase, B1210, GtrA, GtrA , ECK1198, gtrA, JW1201, b1210, ECK2344, JW2346, yfdG, b2350, HemA

Product description

GLUTRNAREDUCT;

Component of glutamyl-tRNA reductase

Glutamyl-tRNA reductase, hemin biosynthesis; neomycin sensitivity

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:0008883

glutamyl-tRNA reductase activity

PMID:1990004

IDA: Inferred from Direct Assay

F

complete

GO:0050661

NADP or NADPH binding

PMID:1990004

IDA: Inferred from Direct Assay

F

complete

GO:0004764

shikimate 5-dehydrogenase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006151

F

Seeded from EcoCyc (v14.0)

complete

GO:0005488

binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006151

C

Seeded from EcoCyc (v14.0)

complete

GO:0006779

porphyrin biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00087

P

Seeded from EcoCyc (v14.0)

complete

GO:0006779

porphyrin biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0627

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

P

Seeded from EcoCyc (v14.0)

complete

GO:0008883

glutamyl-tRNA reductase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00087

F

Seeded from EcoCyc (v14.0)

complete

GO:0008883

glutamyl-tRNA reductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000343

F

Seeded from EcoCyc (v14.0)

complete

GO:0008883

glutamyl-tRNA reductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015895

F

Seeded from EcoCyc (v14.0)

complete

GO:0006783

heme biosynthetic process

PMID:12697336

IMP: Inferred from Mutant Phenotype

P

complete

GO:0008883

glutamyl-tRNA reductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015896

F

Seeded from EcoCyc (v14.0)

complete

GO:0008883

glutamyl-tRNA reductase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.2.1.70

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0008883

glutamyl-tRNA reductase activity

PMID:2548996

IMP: Inferred from Mutant Phenotype

F

complete

GO:0033014

tetrapyrrole biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000343

P

Seeded from EcoCyc (v14.0)

complete

GO:0033014

tetrapyrrole biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015895

P

Seeded from EcoCyc (v14.0)

complete

GO:0033014

tetrapyrrole biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015896

P

Seeded from EcoCyc (v14.0)

complete

GO:0050661

NADP or NADPH binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000343

F

Seeded from EcoCyc (v14.0)

complete

GO:0050661

NADP or NADPH binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015895

F

Seeded from EcoCyc (v14.0)

complete

GO:0050661

NADP or NADPH binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015896

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000343

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006151

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015895

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015896

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

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 glutamyl-tRNA reductase

could be indirect


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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 

MTLLALGINH KTAPVSLRER VSFSPDKLDQ ALDSLLAQPM VQGGVVLSTC NRTELYLSVE
EQDNLQEALI RWLCDYHNLN EEDLRKSLYW HQDNDAVSHL MRVASGLDSL VLGEPQILGQ
VKKAFADSQK GHMKASELER MFQKSFSVAK RVRTETDIGA SAVSVAFAAC TLARQIFESL
STVTVLLVGA GETIELVARH LREHKVQKMI IANRTRERAQ ILADEVGAEV IALSDIDERL
READIIISST ASPLPIIGKG MVERALKSRR NQPMLLVDIA VPRDVEPEVG KLANAYLYSV
DDLQSIISHN LAQRKAAAVE AETIVAQETS EFMAWLRAQS ASETIREYRS QAEQVRDELT
AKALAALEQG GDAQAIMQDL AWKLTNRLIH APTKSLQQAA RDGDNERLNI LRDSLGLE
Length

418

Mol. Wt

46.307 kDa

pI

5.5 (calculated)

Extinction coefficient

30,940 - 31,315 (calc based on 6 Y, 4 W, and 3 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

319..418

PF00745 Glutamyl-tRNAGlu reductase, dimerisation domain

PMID:19920124

Domain

6..157

PF05201 Glutamyl-tRNAGlu reductase, N-terminal domain

PMID:19920124

Domain

171..306

PF01488 Shikimate / quinate 5-dehydrogenase

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=hemA 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:16129173

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945777

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GI:16130282

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948821

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004064

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6X1

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10427

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10427

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945777

Escherichia coli str. K-12 substr. MG1655

ASAP (EcoliWiki Page)

ASAP:ABE-0007761

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P77682

Escherichia coli str. K-12 substr. MG1655

EcoCyc (EcoliWiki Page)

ECOCYC:G7219

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG14131

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948821

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000420

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0422

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

E. coli K-12 MG1655

231

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

115

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

98

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)

hemA

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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_000913:1262917..1262957 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:b1210 (EcoliWiki Page)

NCBI GEO profiles for hemA

microarray

GenExpDB:b1210 (EcoliWiki Page)

Summary of data for hemA 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 (1262653..1262995) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ07; Well:G3[5]

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Notes

Accessions Related to gtrA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10427

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0422

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1210

EcoGene

EcoGene:EG10427

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000420

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004064

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

Arabidopsis thaliana

  • AT1G58290 (score: 1.000; bootstrap: 100%)
  • AT1G09940 (score: 0.736)
  • AT2G31250 (score: 0.510)

From Inparanoid:20070104

Oryza gramene

  • O48674 (score: 1.000; bootstrap: 100%)
  • Q9FW00 (score: 0.964)
  • Q53X37 (score: 0.865)
  • Q42843 (score: 0.865)
  • O65796 (score: 0.819)
  • Q96563 (score: 0.777)
  • Q9FYS1 (score: 0.429)
  • Q9FYS2 (score: 0.246)

From Inparanoid:20070104

Shigella flexneri

HEMA

From SHIGELLACYC

E. coli O157

HEMA

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)

PF00745 Glutamyl-tRNAGlu reductase, dimerisation domain

Pfam (EcoliWiki Page)

PF05201 Glutamyl-tRNAGlu reductase, N-terminal domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:51735

Panther (EcoliWiki Page)

PTHR13812:SF12

Superfamily (EcoliWiki Page)

SUPERFAMILY:69075

Superfamily (EcoliWiki Page)

SUPERFAMILY:69742

Pfam (EcoliWiki Page)

PF01488 Shikimate / quinate 5-dehydrogenase

EcoCyc

EcoCyc:EG10427

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10427

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000420

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0422

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004064

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. ↑ Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 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).
  5. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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