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

On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

[back to top]

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

Standard Name	damX
Gene Synonym(s)	ECK3375, b3388, JW3351, yhfB^[1], yhfB
Product Desc.	predicted membrane-anchored protein^[2]; predicted membrane-anchored protein, interferes with cell division^[3] Interferes with cell division, upstream of dam gene^[4]
Product Synonyms(s)	predicted protein^[1], B3388^[2]^[1], YhfB^[2]^[1], DamX^[2]^[1] , ECK3375, JW3351, yhfB, b3388
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): damX-dam-rpe-gph-trpS^[2], aroKB-damX-dam-rpe-gph-trpS^[2]
Regulation/Activity
Quick Links
edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]

Overexpression causes filamentous biofilm formation. HT_Cmplx49_Mem: DamX+BamA.^[4]

Gene

[back to top]

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

Nomenclature

[back to top]

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

Standard name	damX
Mnemonic	DNA adenine methylase
Synonyms	ECK3375, b3388, JW3351, yhfB^[1], yhfB
edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]

<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	75.74 minutes	MG1655: 3515328..3514042 <gbrowseImage> name=NC_000913:3514042..3515328 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3445988..3444702 <gbrowseImage> name=NC_012967:3444702..3445988 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3401199..3402485 <gbrowseImage> name=NC_012759:3401199..3402485 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4123110..4124396 <gbrowseImage> name=NC_007779:4123110..4124396 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3613073..3611787 <gbrowseImage> name=NC_010473:3611787..3613073 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
DH10B		DH10B: 3613073..3611787 <gbrowseImage> name=NC_010473:3611787..3613073 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
edit table

</protect>

Notes

Sequence Features

[back to top]

See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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)	Reference	Availability	Comments
ΔdamX (Keio:JW3351)	deletion	deletion	PMID:16738554	Shigen CGSC10500^[5]
damX::Tn5KAN-I-SceI (FB21149)	Insertion at nt 461 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21149	does not contain pKD46
damX::Tn5KAN-I-SceI (FB21150)	Insertion at nt 461 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21150	contains pKD46
ΔdamX723::kan			PMID:16738554	CGSC:100528
edit table

Notes

Genetic Interactions

[back to top]

Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]

See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW3351	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGATGAATTCAAACCAGAAGA Primer 2:CCtTTCAGATCGGCCTGTACCTG
4D4	Kohara Phage	Genobase	PMID:3038334
6F9	Kohara Phage	Genobase	PMID:3038334
zhf-3084::Tn10	Linked marker	CAG18456 = CGSC7576^[5]	est. P1 cotransduction: 68% ^[6] Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).
glgP721::Tn10	Linked marker	CAG18638 = CGSC7451^[5]	est. P1 cotransduction: 10% ^[6] Synonyms:zhg-3086::Tn10, zhh-21::Tn10
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11183	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11183	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001165	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947930	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1170	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011065	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Product(s)

[back to top]

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

Nomenclature

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

Standard name	DamX
Synonyms	predicted protein^[1], B3388^[2]^[1], YhfB^[2]^[1], DamX^[2]^[1] , ECK3375, JW3351, yhfB, b3388
Product description	predicted membrane-anchored protein^[2]; predicted membrane-anchored protein, interferes with cell division^[3] Interferes with cell division, upstream of dam gene^[4]
EC number (for enzymes)
edit table

Notes

Function

[back to top]

<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:0000910	cytokinesis	PMID:19684127	IGI: Inferred from Genetic Interaction		P	Seeded from EcoCyc (v14.0)	Missing: with/from
	GO:0000910	cytokinesis	PMID:7603433	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0007049	cell cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0131	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9904	C	Seeded from EcoCyc (v14.0)	complete
	GO:0032155	cell division site part	PMID:19684127	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	glpD	PMID:16606699	Experiment(s):EBI-1145762
Protein	nfnB	PMID:16606699	Experiment(s):EBI-1145762
Protein	dsbC	PMID:16606699	Experiment(s):EBI-1145762
Protein	rpsD	PMID:16606699	Experiment(s):EBI-1145762
Protein	cusA	PMID:16606699	Experiment(s):EBI-1145762
Protein	rpsE	PMID:16606699	Experiment(s):EBI-1145762
Protein	ycgL	PMID:16606699	Experiment(s):EBI-1145762
Protein	ybaB	PMID:16606699	Experiment(s):EBI-1145762
Protein	nuoI	PMID:16606699	Experiment(s):EBI-1145762
Protein	rpsI	PMID:16606699	Experiment(s):EBI-1145762
Protein	yciG	PMID:16606699	Experiment(s):EBI-1145762
Protein	yraN	PMID:16606699	Experiment(s):EBI-1145762
Protein	rplO	PMID:16606699	Experiment(s):EBI-1145762
Protein	rplD	PMID:16606699	Experiment(s):EBI-1145762
edit table

</protect>

Notes

Localization

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

Compartment	Description	Evidence	Reference/Source	Notes
edit table

Notes

Structure and Physical Properties

[back to top]

<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 MDEFKPEDEL KPDPSDRRTG RSRQSSERSE RTERGEPQIN FDDIELDDTD DRRPTRAQKE RNEEPEIEEE IDESEDETVD EERVERRPRK RKKAASKPAS RQYMMMGVGI LVLLLLIIGI GSALKAPSTT SSDQTASGEK SIDLAGNATD QANGVQPAPG TTSAENTQQD VSLPPISSTP TQGQTPVATD GQQRVEVQGD LNNALTQPQN QQQLNNVAVN STLPTEPATV APVRNGNASR DTAKTQTAER PSTTRPARQQ AVIEPKKPQA TVKTEPKPVA QTPKRTEPAA PVASTKAPAA TSTPAPKETA TTAPVQTASP AQTTATPAAG AKTAGNVGSL KSAPSSHYTL QLSSSSNYDN LNGWAKKENL KNYVVYETTR NGQPWYVLVS GVYASKEEAK KAVSTLPADV QAKNPWAKPL RQVQADLK
Length	428
Mol. Wt	46.16 kDa
pI	5.6 (calculated)
Extinction coefficient	26,930 (calc based on 7 Y, 3 W, and 0 C residues)
edit table

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	344..419	PF05036 Sporulation related domain		PMID:19920124
edit table

<motif_map/>

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

Structures

<beststructure> gene=damX taxon=562,83333 </beststructure>

Models

View models at:

edit table

</protect>

Structure figures

</protect>

Notes

Gene Product Resources

[back to top]

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

Resource type	Source	Notes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131266	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947930	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011065	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P11557	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11183	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11183	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947930	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001165	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1170	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Expression

[back to top]

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

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

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	5.93E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	4024	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	826	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	1649	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]

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

Transcription unit(s)
damX-dam-rpe-gph-trpS
aroKB-damX-dam-rpe-gph-trpS
edit table

Figure courtesy of RegulonDB

</protect>

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

[back to top]

<protect><gbrowseImage> name=NC_000913:3515308..3515348 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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

[back to top]

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

Allele Name	Mutation	Phenotype	Reference
edit table

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

Type	Reference	Notes
microarray	GEO Profiles:b3388 (EcoliWiki Page)	NCBI GEO profiles for damX
microarray	GenExpDB:b3388 (EcoliWiki Page)	Summary of data for damX from multiple microarray studies
edit table

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

Resource Name	Resource Type	Description	Source	Notes
edit table

Notes

Accessions Related to damX Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11183	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1170	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3388
EcoGene	EcoGene:EG11183	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001165	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011065	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Evolution

[back to top]

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

Homologs in Other Organisms

[back to top]

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

Organism	Homologs (Statistics)	Comments
Anopheles gambiae	ENSANGP00000012452 (score: 1.000; bootstrap: 54%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000001859 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000019668 (score: 1.000; bootstrap: 54%) ENSBTAP00000029508 (score: 0.290) ENSBTAP00000003517 (score: 0.207) ENSBTAP00000029264 (score: 0.204) ENSBTAP00000024572 (score: 0.165) ENSBTAP00000007041 (score: 0.149) ENSBTAP00000017997 (score: 0.148) ENSBTAP00000023744 (score: 0.111) ENSBTAP00000008948 (score: 0.084) ENSBTAP00000038262 (score: 0.083) ENSBTAP00000038280 (score: 0.083) ENSBTAP00000021516 (score: 0.083) ENSBTAP00000017139 (score: 0.083) ENSBTAP00000021456 (score: 0.082) ENSBTAP00000001108 (score: 0.082) ENSBTAP00000024881 (score: 0.082) ENSBTAP00000009976 (score: 0.080) ENSBTAP00000016832 (score: 0.080) ENSBTAP00000020622 (score: 0.078) ENSBTAP00000018291 (score: 0.078) ENSBTAP00000006440 (score: 0.078) ENSBTAP00000038253 (score: 0.078) ENSBTAP00000008857 (score: 0.077) ENSBTAP00000009402 (score: 0.077) ENSBTAP00000027749 (score: 0.074) ENSBTAP00000006450 (score: 0.074) ENSBTAP00000000515 (score: 0.074) ENSBTAP00000009403 (score: 0.072) ENSBTAP00000001988 (score: 0.072) ENSBTAP00000016839 (score: 0.072) ENSBTAP00000018255 (score: 0.070) ENSBTAP00000021066 (score: 0.070) ENSBTAP00000018185 (score: 0.068) ENSBTAP00000000818 (score: 0.067) ENSBTAP00000023927 (score: 0.066) ENSBTAP00000015960 (score: 0.065) ENSBTAP00000023926 (score: 0.065) ENSBTAP00000018077 (score: 0.063) ENSBTAP00000000746 (score: 0.062) ENSBTAP00000010255 (score: 0.061) ENSBTAP00000009540 (score: 0.060) ENSBTAP00000023156 (score: 0.060) ENSBTAP00000021519 (score: 0.058) ENSBTAP00000026752 (score: 0.058) ENSBTAP00000009541 (score: 0.056) ENSBTAP00000028819 (score: 0.056) ENSBTAP00000023373 (score: 0.054) ENSBTAP00000018110 (score: 0.053) ENSBTAP00000009975 (score: 0.052) ENSBTAP00000015606 (score: 0.051)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000014597 (score: 1.000; bootstrap: 53%) ENSCAFP00000022453 (score: 0.092) ENSCAFP00000014295 (score: 0.083) ENSCAFP00000013315 (score: 0.079) ENSCAFP00000014576 (score: 0.066)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0039257 (score: 1.000; bootstrap: 54%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000046856 (score: 1.000; bootstrap: 100%) ENSRNOP00000040074 (score: 0.223) ENSRNOP00000024730 (score: 0.088) ENSRNOP00000041465 (score: 0.075) ENSRNOP00000026707 (score: 0.053) ENSRNOP00000031747 (score: 0.051)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000021861 (score: 1.000; bootstrap: 56%) ENSXETP00000022466 (score: 0.081) ENSXETP00000050560 (score: 0.078) ENSXETP00000043332 (score: 0.053)	From Inparanoid:20070104
Shigella flexneri	DAMX	From SHIGELLACYC
E. coli O157	DAMX	From ECOO157CYC
edit table

Notes

Families

[back to top]

<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF05036 Sporulation related domain
edit table

</protect> <protect></protect>

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 ^2.9 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).

damX:On One Page

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to damX Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search