gyrA:Gene: Difference between revisions

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|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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****************************************************************************************** -->{{Gene_nomenclature_help}}
{|{{Prettytable}}
{|   id="R46a9d91c5e712"  class=" tableEdit Gene_nomenclature_table" 
 
|-
!align=left {{table_heading_style}} |Standard name
||
''gyrA''
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Mnemonic
|
||
''gyrA''
Gyrase
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK2223, b2231, JW2225, hisW, nalA, parD, nfxA, norA''<ref name='LIB:Riley_2006'/>, norA''


|-
|- class="tableEdit_footer"
!{{table_heading_style}} |Synonyms
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15021.R46a9d91c5e712&page=15021&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|
''ECK2223, b2231, JW2225, hisW, nalA, parD, nfxA, norA''<ref name='LIB:Riley_2006'/>
|-
|colspan='2'|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15021.R46a9d91c5e712&page=15021&pagename={{FULLPAGENAMEE}} edit table]
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<!--Nomenclature_notes--></protect>
===Notes===
===Notes===
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****************************************************************************************** -->{{Gene_location_help}}
{|class = 'sortable' {{Prettytable}} id='138259'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46a9d91cdc05f"  class=" tableEdit Gene_location_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|-  
|
|
MG1655
MG1655
Line 72: Line 76:
50.32 minutes&nbsp;
50.32 minutes&nbsp;
|
|
MG1655: 2337442..2334815<br />{{GBrowseFigureByCoord|2333815|2338442|ecoli|MG1655}}
MG1655: 2337442..2334815<br /><gbrowseImage>
name=NC_000913:2334815..2337442
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10423 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10423 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:2333815..2338442 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|2333815|2338442|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:2334815..2337442&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|2334815|2337442|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10423 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10423 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 2286120..2283493<br /><gbrowseImage>
name=NC_012967:2283493..2286120
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|2283493|2286120|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|2283493|2286120|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 2220620..2223247<br /><gbrowseImage>
name=NC_012759:2220620..2223247
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|2220620|2223247|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|2220620|2223247|FASTA Dump}}
|-  
|
|
W3110
W3110
Line 86: Line 127:
&nbsp;
&nbsp;
|
|
W3110: 2344090..2341463<br />{{GBrowseFigureByCoord|2340463|2345090|ecoli_W3110|W3110}}  
W3110: 2344090..2341463<br /><gbrowseImage>
name=NC_007779:2341463..2344090
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|2340463|2345090|GBrowse(W3110)}}
|
{{GBrowseFastaLink|W3110|NC_007779|2341463|2344090|FASTA Dump}}  
|-
|
[[DH10B]]
|
 
|
DH10B: 2428430..2425803<br /><gbrowseImage>
name=NC_010473:2425803..2428430
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:2340463..2345090 GBrowse(W3110)]
{{GBrowseLink|DH10B|NC_010473|2420549|2433684|GBrowse(DH10B)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:2341463..2344090&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|DH10B|NC_010473|2420549|2433684|FASTA Dump}}
|-class='sortbottom'
 
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|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15021.C46a9d91cdc05f&page=15021&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='138260'
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|- {{table_heading_style}}
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!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-class='sortbottom'
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|
Coding Start (SO:0000323)
|
[[MG1655]]
|
2334818
|
Edman degradation
|
PMID:3029031<br />
|
 
|- class="tableEdit_footer"
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====Notes====
====Notes====
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****************************************************************************************** -->{{Gene_alleles_help}}
{|class = 'sortable' {{Prettytable}} id='138261'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="M46a9d91dd79d1"  class=" tableEdit Gene_allele_table dataTable" 
|- {{table_heading_style}}
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!Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-class='sortbottom'
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|
gyrAA67S
|
 
|
A67S
|
Resistant to
|
(in PPA-10; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAG81C
|
 
|
G81C
|
 
|
(in NAL-97; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAD678E
|
 
|
D678E
|
 
|
(in strain: 227)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAI798IMMI
|
 
|
I798IMMI
|
 
|
(in KL-16; quinolone- resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAA828S
|
 
|
A828S
|
 
|
(in strain: 227)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAS83A
|
 
|
S83A
|
 
|
Resistant to fluoroquinolones
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAQ106R
|
 
|
Q106R
|
 
|
Resistant to fluoroquinolones
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAS83W
|
 
|
S83W
|
 
|
(in PPA-18 and strain 227; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAA84P
|
 
|
A84P
|
 
|
(in PPA-05; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAD87N
|
GAC -> AAC at codon 87
|
D87N
|
Resistant to
|
(in NAL-113 and KL-16; quinolone- resistant)
 
resistant to 200 ug/ml nalidixic acid
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAQ106H
|
 
|
Q106H
|
 
|
(in NAL-89; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAD87V
|
 
|
D87V
|
 
|
(in strain: 202; quinolone- resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
gyrAS83L
|
 
|
S83L
|
 
|
(in NAL-51, NAL-112, NAL-118 and NAL-119; quinolone-resistant)
|
 
|
 
|
Strain variation; seeded from [http://www.uniprot.org/uniprot/P0AES4 UniProt:P0AES4]
|-
|
''gyrA98''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:4735|CGSC:4735]]
|
|-
|
''gyrA20''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:4693|CGSC:4693]]
|
|-
|
''gyrA12''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:5833|CGSC:5833]]
|
|-
|
''gyrA26''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:6591|CGSC:6591]]
|
|-
|
''gyrA39''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:6657|CGSC:6657]]
|
|-
|
''gyrA96''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:6781|CGSC:6781]]
|
|-
|
''gyrA91''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:6799|CGSC:6799]]
|
|-
|
''gyrA93''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:7183|CGSC:7183]]
|
|-
|
''gyrA216''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:7227|CGSC:7227]]
|
|-
|
''gyrA220''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:7261|CGSC:7261]]
|
|-
|
''gyrA218''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:7270|CGSC:7270]]
|
|-
|
''gyrA13''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:8316|CGSC:8316]]
|
|-
|
''gyrA19''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:8423|CGSC:8423]]
|
|-
|
''gyrA111''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:8506|CGSC:8506]]
|
|-
|
''gyrA261''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:8753|CGSC:8753]]
|
|-
|
''gyrA90''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:9163|CGSC:9163]]
|
|-
|
''gyrA99''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:9220|CGSC:9220]]
|
|-
|
''gyrA49''
|
 
|
 
|
 
|
 
|
 
|
[[cgscmutation:9554|CGSC:9554]]
|
|-
|
''gyrA217''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:9588|CGSC:9588]]
|
|-
|
''gyrA223''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:9628|CGSC:9628]]
|
|-
|
''gyrA219''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:9719|CGSC:9719]]
|
|-
|
''gyrA271''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:10266|CGSC:10266]]
|
|-
|
''gyrA260''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:10312|CGSC:10312]]
|
|-
|
''gyrA270''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:10450|CGSC:10450]]
|
|-
|
''[gyrA43]''(ts)
|
 
|
 
|
 
|
temperature sensitive
|
 
|
[[cgscmutation:10853|CGSC:10853]]
|
|-
|
''gyrA25''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:10898|CGSC:10898]]
|
|-
|
''gyrA21''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:11844|CGSC:11844]]
|
|-
|
''gyrA222''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:12272|CGSC:12272]]
|
|-
|
''gyrA29''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:12928|CGSC:12928]]
|
|-
|
''gyrA17''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:14039|CGSC:14039]]
|
|-
|
''gyrA42''(ts)
|
 
|
 
|
 
|
temperature sensitive
|
 
|
[[cgscmutation:17046|CGSC:17046]]
|
|-
|
''gyrA283''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:17056|CGSC:17056]]
|
|-
|
''gyrA44''(ts)
|
 
|
 
|
 
|
temperature sensitive
|
 
|
[[cgscmutation:17109|CGSC:17109]]
|
|-
|
''gyrA37''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:19366|CGSC:19366]]
|
|-
|
''gyrA329''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:23665|CGSC:23665]]
|
|-
|
''gyrA284''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:26543|CGSC:26543]]
|
|-
|
''gyrA900''
|
 
|
 
|
 
|
 
|
 
|
[[cgscmutation:73380|CGSC:73380]]
|
|-
|
''gyrA586''(NalR)
|
 
|
 
|
 
|
nalidixic acid resistant
|
 
|
[[cgscmutation:90278|CGSC:90278]]
|
|-
|
gyrA(Am) from OV6
|
 
|
 
|
Growth Phenotype
|
at 42C the separation of DNA into nucleoids and division localization are both disturbed but cells have continued growth and DNA replication
production of cells, and normal sized cells are all produced at 42C
|
PMID:330757
|
 
|
|-
|
''gyrA43(TS)''
|
 
|
 
|
Resistant to
|
Resistant to Nalidixic Acid at the permissive temperature 32 C.
|
PMID:3025879
|
Strain: KRF949
 
Parental Strain: [http://cgsc.biology.yale.edu/Strain.php?ID=10860 CGSC KNK43]
 
 
[http://cgsc.biology.yale.edu/Mutation.php?ID=10853 CGSC] of allele, not strain.
|
|-
|
''gyrA43''
|
 
|
 
|
Resistant to
|
Resistant to Triazolealanine.
|
PMID:3025879
|
Strain: KRE449
 
Parental:[http://cgsc.biology.yale.edu/Strain.php?ID=10860 CGSC KNK453]
|
Results on table 4.
|-
|
nalA mutation in MH5
|
 
|
 
|
Resistant to
|
resistance to nalidixic acid
|
PMID:4895844
|
 
|
similar strain: MH7
resistant at 40ug nal per ml, sensitive at 60ug nal per ml
|-
|
''gyrA<sup>R</sup>'' ''S83L''
|
 
|
''S83L''
|
Resistant to
|
Quinolone Resistance
|
PMID:8524852
|
 
|
The mutation conferred an increase in resistance toward Quinolones. See figure 1B.
chEBI:23765
|-
|
gyrAnal-112
|
TCG-->TTG
|
S83L
|
Resistant to
|
Resistant to nalidixic acid
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1.
Mutation and phenotype identical in strains gyrAnal-118, gyrAnal-119, and gyrAnal-51. 
|-
|
gyrAppa-18
|
TCG-->TGG
|
S83W
|
Resistant to
|
Resistant to pipemidic acid.
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1. 
|-
|
gyrAnal-113
|
GAC-->AAC
|
D87N
|
Resistant to
|
Resistant to nalidixic acid
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1
|-
|
gyrAnal-97
|
GGT-->TGT
|
G81C
|
Resistant to
|
Resistant to nalidixic acid.
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1. 
|-
|
gyrAppa-5
|
GCG-->CCG
|
A84P
|
Resistant to
|
Resistant to pipemidic acid.
|
PMID 2168148
|
Parental strain: KL16
|
Results found in Table 1. 
|-
|
gyrAppa-10
|
GGC-->TCC
|
A67S
|
Resistant to
|
Resistant to pipemidic acid.
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1.
|-
|
gyrAnal-89
|
CAG-->CAT
|
Q106H
|
Resistant to
|
Resistant to nalidixic acid.
|
PMID:2168148
|
Parental strain: KL16
|
Results found in Table 1.
 
|- class="tableEdit_footer"
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{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===
A study in Latin American found that the single-point mutation of ''gyrA'' in E. coli has caused the E. coli to become resistant to Fluoroquinolones, which is an antimicrobial drug. This has caused an increase in the number of urinary tracts. <ref name='PMID:10744370'/>
A Latin American study found that the ''gyrA'' single-point mutation has caused ''E. coli'' to become resistant to Fluoroquinolones, or antimicrobial drugs. This has resulted in an increase in the number of urinary tract infections. <ref name='PMID:10744370'/>
 
 
==Genetic Interactions==
{{BacktoTop}}
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
 
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<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
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|- {{table_heading_style}}
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!Resource!!Resource Type!!Source!!Notes/Reference
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JW2225
JW2225
Line 162: Line 1,346:
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
|
[[PMID:16769691]]<ref name=PMID:16769691/>
PMID:16769691


Status:Clone OK
Status:Clone OK
Line 169: Line 1,353:


Primer 2:CCTTCTTCTTCTGGCTCGTCGTC  
Primer 2:CCTTCTTCTTCTGGCTCGTCGTC  
|-
|-
|
[[:Category:Kohara_Phage:E13A5|E13A5]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=376 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:2E8|2E8]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=377 Genobase]
|
PMID:3038334
|-  
|
|
[[atoS:Gene|atoS298::Tn10]]
[[atoS:Gene|atoS298::Tn10]]
Line 177: Line 1,379:
CAG12177 gyrA+ = [http://cgsc2.biology.yale.edu/Strain.php?ID=44154 CGSC7525]<ref name='LIB:cgsc'/>
CAG12177 gyrA+ = [http://cgsc2.biology.yale.edu/Strain.php?ID=44154 CGSC7525]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 59% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 59% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR.  This is a NalS derivative constructed by S. McAteer (CGSC).  
Synonyms:zeh-298::Tn10, zej-298::Tn10  
|-  
 
 
The original CAG12177 was NalR.  This is a NalS derivative constructed by S. McAteer (CGSC).  
|-
|
|
[[yfaL:Gene|zfa-723::Tn10]]
[[yfaL:Gene|zfa-723::Tn10]]
Line 191: Line 1,389:
CAG12178 gyrA+ = [http://cgsc2.biology.yale.edu/Strain.php?ID=44155 CGSC7526]<ref name='LIB:cgsc'/>
CAG12178 gyrA+ = [http://cgsc2.biology.yale.edu/Strain.php?ID=44155 CGSC7526]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 76% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 76% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR.  This is a NalS derivative constructed by S. McAteer (CGSC).
Synonyms:zei-723::Tn10, zfa-723::Tn10  


 
|- class="tableEdit_footer"
The original CAG12178 was NalR.  This is a NalS derivative constructed by S. McAteer (CGSC).
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<protect><!--Gene_resources_notes--></protect>
<protect><!--Gene_resources_notes--></protect>
===Notes===
===Notes===
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|- {{table_heading_style}}
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10423 EcoCyc:EG10423] 
EcoCyc:EG10423
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0418 EchoBASE:EB0418] 
EcoGene:EG10423
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b2231 EcoliGenExpDB:b2231] 
RegulonDB:ECK120000416
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
[http://BioCyc.org/ECOL199310/new-image?object=C2773 ECOL199310CYC:C2773]
[http://www.ncbi.nlm.nih.gov/gene?term=946614 GeneID:946614]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10423 EcoGene:EG10423] 
EchoBASE:EB0418
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
|
|
[http://BioCyc.org/ECOO157/new-image?object=GYRA ECOO157CYC:GYRA] 
ASAP:ABE-0007370
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
 
|
|- class="tableEdit_footer"
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.15021.C46a9d91f2e5e3&page=15021&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/651 CGSC:651]
|
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<protect><!--Gene_accessions_notes--></protect>
<protect><!--Gene_accessions_notes--></protect>
===Notes===
===Notes===
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<noinclude><protect>
<noinclude><protect>
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{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</protect></noinclude>
===Categories===
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
Line 306: Line 1,495:
[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:gyr genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:41, 19 September 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

gyrA

Mnemonic

Gyrase

Synonyms

ECK2223, b2231, JW2225, hisW, nalA, parD, nfxA, norA[1], norA

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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.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

50.32 minutes 

MG1655: 2337442..2334815
<gbrowseImage> name=NC_000913:2334815..2337442 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2286120..2283493
<gbrowseImage> name=NC_012967:2283493..2286120 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2220620..2223247
<gbrowseImage> name=NC_012759:2220620..2223247 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2344090..2341463
<gbrowseImage> name=NC_007779:2341463..2344090 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2428430..2425803
<gbrowseImage> name=NC_010473:2425803..2428430 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

2334818

Edman degradation

PMID:3029031[2]


edit table


Notes

Alleles and Phenotypes

[back to top]


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

gyrAA67S

A67S

Resistant to

(in PPA-10; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAG81C

G81C

(in NAL-97; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAD678E

D678E

(in strain: 227)

Strain variation; seeded from UniProt:P0AES4

gyrAI798IMMI

I798IMMI

(in KL-16; quinolone- resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAA828S

A828S

(in strain: 227)

Strain variation; seeded from UniProt:P0AES4

gyrAS83A

S83A

Resistant to fluoroquinolones

seeded from UniProt:P0AES4

gyrAQ106R

Q106R

Resistant to fluoroquinolones

seeded from UniProt:P0AES4

gyrAS83W

S83W

(in PPA-18 and strain 227; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAA84P

A84P

(in PPA-05; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAD87N

GAC -> AAC at codon 87

D87N

Resistant to

(in NAL-113 and KL-16; quinolone- resistant)

resistant to 200 ug/ml nalidixic acid

Strain variation; seeded from UniProt:P0AES4

gyrAQ106H

Q106H

(in NAL-89; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAD87V

D87V

(in strain: 202; quinolone- resistant)

Strain variation; seeded from UniProt:P0AES4

gyrAS83L

S83L

(in NAL-51, NAL-112, NAL-118 and NAL-119; quinolone-resistant)

Strain variation; seeded from UniProt:P0AES4

gyrA98(NalR)

nalidixic acid resistant

CGSC:4735

gyrA20(NalR)

nalidixic acid resistant

CGSC:4693

gyrA12(NalR)

nalidixic acid resistant

CGSC:5833

gyrA26(NalR)

nalidixic acid resistant

CGSC:6591

gyrA39(NalR)

nalidixic acid resistant

CGSC:6657

gyrA96(NalR)

nalidixic acid resistant

CGSC:6781

gyrA91(NalR)

nalidixic acid resistant

CGSC:6799

gyrA93(NalR)

nalidixic acid resistant

CGSC:7183

gyrA216(NalR)

nalidixic acid resistant

CGSC:7227

gyrA220(NalR)

nalidixic acid resistant

CGSC:7261

gyrA218(NalR)

nalidixic acid resistant

CGSC:7270

gyrA13(NalR)

nalidixic acid resistant

CGSC:8316

gyrA19(NalR)

nalidixic acid resistant

CGSC:8423

gyrA111(NalR)

nalidixic acid resistant

CGSC:8506

gyrA261(NalR)

nalidixic acid resistant

CGSC:8753

gyrA90(NalR)

nalidixic acid resistant

CGSC:9163

gyrA99(NalR)

nalidixic acid resistant

CGSC:9220

gyrA49

CGSC:9554

gyrA217(NalR)

nalidixic acid resistant

CGSC:9588

gyrA223(NalR)

nalidixic acid resistant

CGSC:9628

gyrA219(NalR)

nalidixic acid resistant

CGSC:9719

gyrA271(NalR)

nalidixic acid resistant

CGSC:10266

gyrA260(NalR)

nalidixic acid resistant

CGSC:10312

gyrA270(NalR)

nalidixic acid resistant

CGSC:10450

[gyrA43](ts)

temperature sensitive

CGSC:10853

gyrA25(NalR)

nalidixic acid resistant

CGSC:10898

gyrA21(NalR)

nalidixic acid resistant

CGSC:11844

gyrA222(NalR)

nalidixic acid resistant

CGSC:12272

gyrA29(NalR)

nalidixic acid resistant

CGSC:12928

gyrA17(NalR)

nalidixic acid resistant

CGSC:14039

gyrA42(ts)

temperature sensitive

CGSC:17046

gyrA283(NalR)

nalidixic acid resistant

CGSC:17056

gyrA44(ts)

temperature sensitive

CGSC:17109

gyrA37(NalR)

nalidixic acid resistant

CGSC:19366

gyrA329(NalR)

nalidixic acid resistant

CGSC:23665

gyrA284(NalR)

nalidixic acid resistant

CGSC:26543

gyrA900

CGSC:73380

gyrA586(NalR)

nalidixic acid resistant

CGSC:90278

gyrA(Am) from OV6

Growth Phenotype

at 42C the separation of DNA into nucleoids and division localization are both disturbed but cells have continued growth and DNA replication production of cells, and normal sized cells are all produced at 42C

PMID:330757[3]

gyrA43(TS)

Resistant to

Resistant to Nalidixic Acid at the permissive temperature 32 C.

PMID:3025879[4]

Strain: KRF949

Parental Strain: CGSC KNK43


CGSC of allele, not strain.

gyrA43

Resistant to

Resistant to Triazolealanine.

PMID:3025879[4]

Strain: KRE449

Parental:CGSC KNK453

Results on table 4.

nalA mutation in MH5

Resistant to

resistance to nalidixic acid

PMID:4895844[5]

similar strain: MH7 resistant at 40ug nal per ml, sensitive at 60ug nal per ml

gyrAR S83L

S83L

Resistant to

Quinolone Resistance

PMID:8524852[6]

The mutation conferred an increase in resistance toward Quinolones. See figure 1B. chEBI:23765

gyrAnal-112

TCG-->TTG

S83L

Resistant to

Resistant to nalidixic acid

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1. Mutation and phenotype identical in strains gyrAnal-118, gyrAnal-119, and gyrAnal-51.

gyrAppa-18

TCG-->TGG

S83W

Resistant to

Resistant to pipemidic acid.

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1.

gyrAnal-113

GAC-->AAC

D87N

Resistant to

Resistant to nalidixic acid

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1

gyrAnal-97

GGT-->TGT

G81C

Resistant to

Resistant to nalidixic acid.

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1.

gyrAppa-5

GCG-->CCG

A84P

Resistant to

Resistant to pipemidic acid.

PMID 2168148

Parental strain: KL16

Results found in Table 1.

gyrAppa-10

GGC-->TCC

A67S

Resistant to

Resistant to pipemidic acid.

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1.

gyrAnal-89

CAG-->CAT

Q106H

Resistant to

Resistant to nalidixic acid.

PMID:2168148[7]

Parental strain: KL16

Results found in Table 1.

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Notes

A Latin American study found that the gyrA single-point mutation has caused E. coli to become resistant to Fluoroquinolones, or antimicrobial drugs. This has resulted in an increase in the number of urinary tract infections. [8]


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

JW2225

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCAGCGACCTTGCGAGAGAAAT

Primer 2:CCTTCTTCTTCTGGCTCGTCGTC

E13A5

Kohara Phage

Genobase

PMID:3038334[10]

2E8

Kohara Phage

Genobase

PMID:3038334[10]

atoS298::Tn10

Linked marker

CAG12177 gyrA+ = CGSC7525[11]

est. P1 cotransduction: 59% [12]
Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[11]

est. P1 cotransduction: 76% [12]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

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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:EG10423

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10423

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000416

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946614

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0418

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007370

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. ↑ Menzel, R & Gellert, M (1987) Fusions of the Escherichia coli gyrA and gyrB control regions to the galactokinase gene are inducible by coumermycin treatment. J. Bacteriol. 169 1272-8 PubMed
  3. ↑ Frank, S et al. (1977) Immunocycte stimulation in vitro by nontoxic bacterial lipopolysaccharide derivatives. J. Immunol. 119 855-60 PubMed
  4. ↑ 4.0 4.1 Rudd, KE & Menzel, R (1987) his operons of Escherichia coli and Salmonella typhimurium are regulated by DNA supercoiling. Proc. Natl. Acad. Sci. U.S.A. 84 517-21 PubMed
  5. ↑ Hane, MW & Wood, TH (1969) Escherichia coli K-12 mutants resistant to nalidixic acid: genetic mapping and dominance studies. J. Bacteriol. 99 238-41 PubMed
  6. ↑ Khodursky, AB et al. (1995) Topoisomerase IV is a target of quinolones in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 92 11801-5 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 Yoshida, H et al. (1990) Quinolone resistance-determining region in the DNA gyrase gyrA gene of Escherichia coli. Antimicrob. Agents Chemother. 34 1271-2 PubMed
  8. ↑ Gales, AC et al. (2000) Occurrence of single-point gyrA mutations among ciprofloxacin-susceptible Escherichia coli isolates causing urinary tract infections in Latin America. Diagn. Microbiol. Infect. Dis. 36 61-4 PubMed
  9. ↑ Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed
  10. ↑ 10.0 10.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  11. ↑ 11.0 11.1 CGSC: The Coli Genetics Stock Center
  12. ↑ 12.0 12.1 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).

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