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thyA:On One Page

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Standard Name

thyA

Gene Synonym(s)

ECK2823, b2827, JW2795[1]

Product Desc.

thymidylate synthase[2][3];

Component of thymidylate synthase[2][3]

Thymidylate synthase; aminopterin, trimethoprim resistance; homodimer[4]

Product Synonyms(s)

thymidylate synthetase[1], B2827[2][1], ThyA[2][1], 5,10-methylenetetrahydrofolate:dUMP C-methyltransferase[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): lgt-thyA[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(thyA)    Textpresso(thyA)

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Notes

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Thymidylate synthase (TS) catalytic mechanism order: TS + dUMP --> TS x dUMP + (6R)-5,10-CH2-H4folate --> TS x dUMP x (6R)-5,10-CH2H4folate --> TS x dTMP x H2folate --> TS x dTMP --> TS.[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

thyA

Mnemonic

Thymine

Synonyms

ECK2823, b2827, JW2795[1]

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Notes

Location(s) and DNA Sequence

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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

63.85 minutes 

MG1655: 2963177..2962383
gbrowse_img.php?coord=2962383..2963177&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2859775..2858981
gbrowse_img.php?coord=2858981..2859775&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2963811..2963017
gbrowse_img.php?coord=2963017..2963811&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3057047..3056253
gbrowse_img.php?coord=3056253..3057047&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 2849531..2850325
gbrowse_img.php?coord=2849531..2850325&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔthyA (Keio:JW2795)

deletion

deletion

PMID:16738554

Shigen

thyA751

CGSC:4790

thyA25

CGSC:4870

thyA715

CGSC:5108

thyA36

CGSC:5214

thyA6

CGSC:5229

thyA47

CGSC:5247

thyA52

CGSC:5930

thyA12

CGSC:6324

thyA704

CGSC:6454

thyA3

CGSC:6456

thyA81

CGSC:6550

thyA82

CGSC:6553

thyA56

CGSC:6624

thyA117

CGSC:6693

thyA61

CGSC:6774

thyA144

CGSC:6965

thyA54

CGSC:6984

thyA42

CGSC:7046

thyA748::Tn10

CGSC:7146

thyA147

CGSC:7435

thyA148

CGSC:7441

thyA45

CGSC:7744

thyA702

CGSC:7782

thyA55

CGSC:8013

thyA43

CGSC:8047

thyA11

CGSC:8289

thyA24

CGSC:8317

thyA305

CGSC:8415

thyA14

CGSC:8453

thyA33

CGSC:8524

thyA114(Stable)::Mu

CGSC:8530

thyA20

CGSC:8680

thyA707

CGSC:8791

thyA111

CGSC:8970

thyA16

CGSC:9232

thyA15

CGSC:9246

thyA705

CGSC:9518

thyA48

CGSC:9636

thyA714

CGSC:9655

thyA95

CGSC:9679

thyA44

CGSC:9739

thyA710

CGSC:9829

thyA0

CGSC:9977

thyA299

CGSC:10047

thyA59

CGSC:10129

thyA746

CGSC:10313

ΔthyA752

CGSC:10675

thyA719

CGSC:10685

thyA755

CGSC:10854

thyA756

CGSC:10867

ΔthyA57

CGSC:10899

thyA758

CGSC:10937

thyA38

CGSC:11040

thyA26

CGSC:11309

thyA41

CGSC:11313

thyA23

CGSC:11395

thyA325

CGSC:11630

thyA46

CGSC:11771

thyA2

CGSC:13565

thyA18

CGSC:13591

thyA34

CGSC:13776

thyA10

CGSC:13932

thyA39

CGSC:13966

thyA29

CGSC:14002

thyA27

CGSC:14007

thyA53

CGSC:14054

thyA28

CGSC:14170

thyA30

CGSC:14178

thyA31

CGSC:14184

thyA49

CGSC:14623

thyA709

CGSC:14678

thyA17

CGSC:16221

thyA51

CGSC:16360

thyA321

CGSC:16724

thyA58

CGSC:16920

thyA50

CGSC:16936

thyA40

CGSC:17076

thyA333

CGSC:19205

thyA9999(ts)::Mud(Ap,lac)

temperature sensitive

CGSC:19260

thyA149

CGSC:19317

thyA101

CGSC:19651

thyA9

CGSC:23655

thyA326

CGSC:27048

thyA753

CGSC:29474

thyA281

CGSC:66486

thyA294

CGSC:72642

thyA119

CGSC:74742

thyA760

CGSC:79050

thyA749

CGSC:80478

thyA750

CGSC:80480


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Notes

Genetic Resources

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ResourceResource TypeSourceNotes/Reference

JW2795

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAACAGTATTTAGAACTGAT

Primer 2:CCGATAGCCACCGGCGCTTTAAT

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[5]

est. P1 cotransduction: 67% [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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11002

EchoBASE (EcoliWiki Page)

EchoBASE:EB0995

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2827

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3422

EcoGene (EcoliWiki Page)

EcoGene:EG11002

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:THYA

CGSC (EcoliWiki Page)

CGSC:104

ASAP (EcoliWikiPage)

ASAP:ABE-0009268


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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

ThyA

Synonyms

thymidylate synthetase[1], B2827[2][1], ThyA[2][1], 5,10-methylenetetrahydrofolate:dUMP C-methyltransferase[2][1]

Product description

thymidylate synthase[2][3];

Component of thymidylate synthase[2][3]

Thymidylate synthase; aminopterin, trimethoprim resistance; homodimer[4]

EC number (for enzymes)
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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [7]

complete

GO:0009165

nucleotide biosynthetic process

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0545

P

Seeded from EcoCyc [7]

complete

GO:0008168

methyltransferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0489

F

Seeded from EcoCyc [7]

complete

GO:0006417

regulation of translation

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0810

P

Seeded from EcoCyc [7]

complete

GO:0006231

dTMP biosynthetic process

GO_REF:0000002
GO_REF:0000020

IEA: Inferred from Electronic Annotation

InterPro:IPR000398
HAMAP:MF_00008

P

Seeded from EcoCyc 12.5 [8]

complete

GO:0005737

cytoplasm

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0004799

thymidylate synthase activity

GO_REF:0000002
GO_REF:0000003
GO_REF:0000020

IEA: Inferred from Electronic Annotation

InterPro:IPR000398
EC:2.1.1.45
HAMAP:MF_00008

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0003723

RNA binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

F

Seeded from EcoCyc [7]

complete

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009257

10-formyltetrahydrofolate biosynthetic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence

Protein

Subunits of thymidylate synthase

could be indirect

Protein

ybiB

PMID:16606699

Experiment(s):EBI-1144077

Protein

rplB

PMID:16606699

Experiment(s):EBI-1144077

Protein

yhbJ

PMID:16606699

Experiment(s):EBI-1144077

Protein

ygdL

PMID:16606699

Experiment(s):EBI-1144077

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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MKQYLELMQK VLDEGTQKND RTGTGTLSIF GHQMRFNLQD GFPLVTTKRC HLRSIIHELL
WFLQGDTNIA YLHENNVTIW DEWADENGDL GPVYGKQWRA WPTPDGRHID QITTVLNQLK
NDPDSRRIIV SAWNVGELDK MALAPCHAFF QFYVADGKLS CQLYQRSCDV FLGLPFNIAS
YALLVHMMAQ QCDLEVGDFV WTGGDTHLYS NHMDQTHLQL SREPRPLPKL IIKRKPESIF
DYRFEDFEIE GYDPHPGIKA PVAI
Length

264

Mol. Wt

30.479 kDa

pI

5.9 (calculated)

Extinction coefficient

51,910 - 52,535 (calc based on 9 Y, 7 W, and 5 C residues)

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Domains/Motifs/Modification Sites

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

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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Resource typeSourceNotes/Reference
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Notes

Accessions in Other Databases

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DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:THYMIDYLATESYN-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0A884

PFAM (EcoliWiki Page)

PFAM:PF00303

RefSeq (EcoliWiki Page)

RefSeq:NP_417304


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

lgt-thyA

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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=2963157..2963197&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b2827 (EcoliWiki Page)

NCBI GEO profiles for thyA

microarray

GenExpDB:b2827 (EcoliWiki Page)

Summary of data for thyA 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 NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to thyA Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11002

EchoBASE (EcoliWiki Page)

EchoBASE:EB0995

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2827

EcoGene (EcoliWiki Page)

EcoGene:EG11002


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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.

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000013700 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G34570 (score: 1.000; bootstrap: 100%)
  • AT2G16370 (score: 0.743)
  • AT2G21550 (score: 0.331)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000009213 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00039295 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00022455 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000006268 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000027096 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000010823 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-59 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-950 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-951 (score: 0.979)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0024920 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA16493-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000023982 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000315644 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000005405 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000026836 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000025810 (score: 0.105)

From Inparanoid:20070104

Mus musculus

  • MGI:98878 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • O81395 (score: 1.000; bootstrap: 59%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000016716 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOR074C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC15E14 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000142407 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000006860 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

THYA

From SHIGELLACYC

E. coli O157

THYA

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00303


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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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 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 3.4 3.5 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 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. ↑ 7.0 7.1 7.2 7.3 7.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 8.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

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