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Standard Name	amiC
Gene Synonym(s)	ECK2813, b2817, JW5449, ygdN^[1], ygdN
Product Desc.	N-acetylmuramyl-L-alanine amidase^[2]^[3] N-acetylmuramyl-L-alanine amidase, periplasmic; recruited to the septal ring by FtsN during cell division; overexpression causes lysis^[4]
Product Synonyms(s)	N-acetylmuramoyl-L-alanine amidase^[1], B2817^[2]^[1], YgdN^[2]^[1], AmiC^[2]^[1] , ECK2813, JW5449, ygdN, b2817
Function from GO	<GO_nr />
Knock-Out Phenotype	Septation defect^[5]. Increases the number of cells in chains
Regulation/Expression	transcription unit(s): amiC^[2]
Regulation/Activity
Quick Links
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Notes

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Verified Tat substrate: AmiC has a predicted Tat-only (Class I) 31 aa signal peptide (Tullman-Ercek, 2007). N-terminal domain is septal targeting domain. Ize (2003) incorrectly report a predicted 33 aa signal peptide in the text, but correctly depict a predicted 31 aa signal peptide in Fig. 4A. Divisome, non-essential.^[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	amiC
Mnemonic	amidase Amidase
Synonyms	ECK2813, b2817, JW5449, ygdN^[1], ygdN
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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
BW2952		NC_012759: 2832927..2834180 <gbrowseImage> name=NC_012759:2832927..2834180 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
MG1655	63.49 minutes	MG1655: 2947032..2945779 <gbrowseImage> name=NC_000913:2945779..2947032 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2843629..2842376 <gbrowseImage> name=NC_012967:2842376..2843629 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
W3110		W3110: 2947666..2946413 <gbrowseImage> name=NC_007779:2946413..2947666 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3040902..3039649 <gbrowseImage> name=NC_010473:3039649..3040902 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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
ΔamiC (Keio:JW5449)	deletion	deletion			PMID:16738554	Shigen CGSC11395^[6]
ΔamiC742::kan					PMID:16738554	CGSC:99994
∆amiC::Kan			Colony Morphology	20-30% of the population exists as chains of 3 to 6 unseparated cells.	PMID:11454209
ΔamiC ΔamiA ΔamiB	deletion	deletion	Cell Shape	defect in cell separation	PMID:19525345
amiC(del)	in frame single deletion		Sensitivity to	Increase susceptibility to protamine when compared to wild-type. fig 2.	PMID:21149452	Wildtype parent: BW25113
amiABC(del)			Growth Phenotype	when Supplying cells with the cell-wall precursor murein tripeptide (AeK) labeled with NBD accumulation of AeK-NBD occurs at division site indicating labeled precursors are utilized for septal peptidoglycan synthesis and amiC activity is mainly responsible for the rapid removal of labeled murein peptides at division sites as indicated by double mutant amiAB(del), figure 7.	PMID:21472954
amiAB(del)			Cell Shape	amiC activity is mainly responsible for the rapid removal of labeled murein peptides at division sites as indicated by double mutant amiAB(del), figure 7.
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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
JW5449	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCAGGATCCAACACTGCAAT Primer 2:CCTCCCCTTCTCGCCAGCGTCGC
9A12	Kohara Phage	Genobase	PMID:3038334
10B6	Kohara Phage	Genobase	PMID:3038334
fucP3072::Tn10	Linked marker	CAG12079 = CGSC7427^[6]	est. P1 cotransduction: 62% ^[7] Synonyms:fuc-3072::Tn10
recD1901::Tn10	Linked marker	CAG12135 = CGSC7429^[6]	est. P1 cotransduction: 85% ^[7]
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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:G7458	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13086	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004021	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947293	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2895	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009238	Escherichia coli str. K-12 substr. MG1655
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Notes

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Name	URL	Comments
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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	AmiC
Synonyms	N-acetylmuramoyl-L-alanine amidase^[1], B2817^[2]^[1], YgdN^[2]^[1], AmiC^[2]^[1] , ECK2813, JW5449, ygdN, b2817
Product description	N-acetylmuramyl-L-alanine amidase^[2]^[3] N-acetylmuramyl-L-alanine amidase, periplasmic; recruited to the septal ring by FtsN during cell division; overexpression causes lysis^[4]
EC number (for enzymes)	3.5.1.28^[1]
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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:0030288	outer membrane-bounded periplasmic space				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0005576	extracellular region	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0964	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005576	extracellular region	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0243	C	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	PMID:12787347	IDA: Inferred from Direct Assay		C		complete
	GO:0008745	N-acetylmuramoyl-L-alanine amidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002508	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008745	N-acetylmuramoyl-L-alanine amidase activity	PMID:11454209	IDA: Inferred from Direct Assay		F		complete
	GO:0008745	N-acetylmuramoyl-L-alanine amidase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:3.5.1.28	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009253	peptidoglycan catabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002508	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
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Notes

Localization

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

Compartment	Evidence	Reference/Source
periplasm
Periplasm	PMID:12787347	EchoLocation:amiC
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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 MTDYASFAKV SGQISRLLVT QLRFLLLGRG MSGSNTAISR RRLLQGAGAM WLLSVSQVSL AAVSQVVAVR VWPASSYTRV TVESNRQLKY KQFALSNPER VVVDIEDVNL NSVLKGMAAQ IRADDPFIKS ARVGQFDPQT VRMVFELKQN VKPQLFALAP VAGFKERLVM DLYPANAQDM QDPLLALLED YNKGDLEKQV PPAQSGPQPG KAGRDRPIVI MLDPGHGGED SGAVGKYKTR EKDVVLQIAR RLRSLIEKEG NMKVYMTRNE DIFIPLQVRV AKAQKQRADL FVSIHADAFT SRQPSGSSVF ALSTKGATST AAKYLAQTQN ASDLIGGVSK SGDRYVDHTM FDMVQSLTIA DSLKFGKAVL NKLGKINKLH KNQVEQAGFA VLKAPDIPSI LVETAFISNV EEERKLKTAT FQQEVAESIL AGIKAYFADG ATLARRG
Length	447
Mol. Wt	48.958 kDa
pI	10.1 (calculated)
Extinction coefficient	25,900 (calc based on 10 Y, 2 W, and 0 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
motif	1-31	UniProt Manual:Signal Peptides	UniProt:P63883
Domain	190..405	PF01520 N-acetylmuramoyl-L-alanine amidase		PMID:19920124
Domain	25..130	PF11741 Localisation of periplasmic protein complexes		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=amiC 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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Resource type	Source	Notes/Reference
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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:90111492	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947293	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009238	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P63883	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7458	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13086	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947293	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004021	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2895	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	Reference(s)
Protein	E. coli K-12 MG1655	410	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	68	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	292	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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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
amiC
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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_000913:2947012..2947052 source=MG1655 flip=1 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:b2817 (EcoliWiki Page)	NCBI GEO profiles for amiC
microarray	GenExpDB:b2817 (EcoliWiki Page)	Summary of data for amiC 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 (2947024..2947324) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ01; Well:D1^[8]
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Notes

Accessions Related to amiC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7458	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2895	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2817
EcoGene	EcoGene:EG13086	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004021	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009238	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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
Xenopus tropicalis	ENSXETP00000026055 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	S3025	From SHIGELLACYC
E. coli O157	Z4134	From ECOO157CYC
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Do-It-Yourself Web Tools

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)	PF01520 N-acetylmuramoyl-L-alanine amidase
Superfamily (EcoliWiki Page)	SUPERFAMILY:53187
Pfam (EcoliWiki Page)	PF11741 Localisation of periplasmic protein complexes
EcoCyc	EcoCyc:G7458	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13086	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004021	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2895	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009238	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 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 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.
↑ Priyadarshini, R et al. (2006) Daughter cell separation by penicillin-binding proteins and peptidoglycan amidases in Escherichia coli. J. Bacteriol. 188 5345-55 PubMed
↑ ^6.0 ^6.1 ^6.2 CGSC: The Coli Genetics Stock Center
↑ ^7.0 ^7.1 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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

amiC:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

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Sequence Features

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Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

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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 amiC Expression

Notes

Links

Evolution

Homologs in Other Organisms

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Notes

Families

Notes

Links

References

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