kptA:On One Page

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

Quickview

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Standard Name

kptA

Gene Synonym(s)

ECK4322, b4331, JW5784, yjiI[1], yjiI

Product Desc.

enzyme with tRNA 2'-phosphotransferase activity[2][3]

2'-phosphotransferase, ligated tRNA substrate in vitro, physiological role and in vivo substrate unknown[4]

Product Synonyms(s)

2'-phosphotransferase[1], B4331[2][1], YjiI[2][1], KptA[2][1] , ECK4322, JW5784, yjiI, b4331

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): kptA[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

kptA

Mnemonic

K-12 phosphotransferase

Synonyms

ECK4322, b4331, JW5784, yjiI[1], yjiI

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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

98.26 minutes, 98.26 minutes 

MG1655: 4558953..4559507
<gbrowseImage> name=NC_000913:4558953..4559507 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4541844..4542398
<gbrowseImage> name=NC_012967:4541844..4542398 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4497438..4497992
<gbrowseImage> name=NC_012759:4497438..4497992 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4565610..4566164
<gbrowseImage> name=NC_007779:4565610..4566164 source=W3110 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

kptA(del) (Keio:JW5784)

deletion

deletion

PMID:16738554

Shigen

CGSC11576[5]

kptA729(del)::kan

PMID:16738554

CGSC:101632


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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

JW5784

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCAAAGTACAACGAAAAAGA

Primer 2:CCCCACTCAAGAAACTCAACCGC

5G8

Kohara Phage

Genobase

PMID:3038334

8H8

Kohara Phage

Genobase

PMID:3038334

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[5]

est. P1 cotransduction: % [6]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

mdoB202::Tn10

Linked marker

CAG18430 = CGSC7488[5]

est. P1 cotransduction: 25% [6]
Synonyms:zjj-202::Tn10, zji-202::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:G7928

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12570

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004423

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948858

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2458

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014204

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

KptA

Synonyms

2'-phosphotransferase[1], B4331[2][1], YjiI[2][1], KptA[2][1] , ECK4322, JW5784, yjiI, b4331

Product description

enzyme with tRNA 2'-phosphotransferase activity[2][3]

2'-phosphotransferase, ligated tRNA substrate in vitro, physiological role and in vivo substrate unknown[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:0006388

tRNA splicing, via endonucleolytic cleavage and ligation

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00299

P

Seeded from EcoCyc (v14.0)

complete

GO:0006388

tRNA splicing, via endonucleolytic cleavage and ligation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002745

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016772

transferase activity, transferring phosphorus-containing groups

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00299

F

Seeded from EcoCyc (v14.0)

complete

GO:0016772

transferase activity, transferring phosphorus-containing groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002745

F

Seeded from EcoCyc (v14.0)

complete

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

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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

MWKRLCAGLS CRKFINQVTM TSVNKNRKSR DENEMAKYNE KELADTSKFL SFVLRHKPEA
IGIVLDREGW ADIDKLILCA QKAGKRLTRA LLDTVVATSD KKRFSYSSDG RCIRAVQGHS
TSQVAISFAE KTPPQFLYHG TASRFLDEIK KQGLIAGERH YVHLSADEAT ARKVGARHGS
PVILTVKAQE MAKRGLPFWQ AENGVWLTST VAVEFLEW
Length

218

Mol. Wt

24.556 kDa

pI

10.0 (calculated)

Extinction coefficient

33,460 - 33,960 (calc based on 4 Y, 5 W, and 4 C residues)


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

5..180

PF01885 RNA 2'-phosphotransferase, Tpt1 / KptA family

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=kptA 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:90111732

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948858

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014204

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P39380

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7928

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12570

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948858

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004423

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2458

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

8a

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

6a

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

1a

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

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)

kptA

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_000913:4558933..4558973 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


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

Type Reference Notes

microarray

GEO Profiles:b4331 (EcoliWiki Page)

NCBI GEO profiles for kptA

microarray

GenExpDB:b4331 (EcoliWiki Page)

Summary of data for kptA from multiple microarray studies


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 kptA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G7928

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2458

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4331

EcoGene

EcoGene:EG12570

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004423

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014204

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

Apis mellifera

  • ENSAPMP00000035359 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G23600 (score: 1.000; bootstrap: 100%)
  • AT2G45330 (score: 0.921)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000022022 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000004882 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0187196 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0053057 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000314073 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000016989 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000012807 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000006568 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000031211 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOL102C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC2C42c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000133489 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00005105001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000015639 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

YJII

From SHIGELLACYC

E. coli O157

Z5930

From ECOO157CYC


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

Panther (EcoliWiki Page)

PTHR12684:SF2

Superfamily (EcoliWiki Page)

SUPERFAMILY:56399

Pfam (EcoliWiki Page)

PF01885 RNA 2'-phosphotransferase, Tpt1 / KptA family

EcoCyc

EcoCyc:G7928

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12570

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004423

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2458

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0014204

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 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 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).

Categories

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