RegulonDB

Gene
Name:	mrdB
Synonym(s):	ECK0627, EG10607, b0634, rodA
Genome position(nucleotides):	665201 <-- 666313
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.02
External database links:

ASAP:	ABE-0002173
CGSC:	18145
ECHOBASE:	EB0602
ECOLIHUB:	mrdB
OU-MICROARRAY:	b0634
STRING:	511145.b0634
COLOMBOS:	mrdB

Gene

Name:

mrdB

Synonym(s):

ECK0627, EG10607, b0634, rodA

Genome position(nucleotides):

665201 <-- 666313

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

52.02

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

20 -> 364

MLLILLALLVYSALVIWSASGQDIGMMERKIGQIAMGLVIMVVMAQIPPRVYEGWAPYLYIICIILLVAVDAFGAISKGAQRWLDLGIVRFQPSEIAKIAVPLMVARFINRDVCPPSLKNTGIALVLIFMPTLLVAAQPDLGTSILVALSGLFVLFLSGLSWRLIGVAVVLVAAFIPILWFFLMHDYQRQRVMMLLDPESDPLGAGYHIIQSKIAIGSGGLRGKGWLHGTQSQLEFLPERHTDFIFAVLAEELGLVGILILLALYILLIMRGLWIAARAQTTFGRVMAGGLMLILFVYVFVNIGMVSGILPVVGVPLPLVSYGGSALIVLMAGFGIVMSIHTHRK

50 -> 70

IGQIAMGLVIMVVMAQIPPRV

UniProt: Helical.

75 -> 95

APYLYIICIILLVAVDAFGAI

UniProt: Helical.

114 -> 114

E → A: results in a dominant negative phenotype in which cells lose their elongated morphology and become enlarged and spherical before lysis; residue is part of a putative central cavity which is catalytically essential

117 -> 117

K → A; results in a dominant negative phenotype in which cells lose their elongated morphology and become enlarged and spherical before lysis; residue is part of a putative central cavity which is catalytically essential

Type

Positions

Sequence

Comment

20 -> 364

50 -> 70

IGQIAMGLVIMVVMAQIPPRV

UniProt: Helical.

75 -> 95

APYLYIICIILLVAVDAFGAI

UniProt: Helical.

114 -> 114

117 -> 117

136 -> 156

SLKNTGIALVLIFMPTLLVAA

UniProt: Helical.

159 -> 159

D → A: results in a dominant negative phenotype in which cells lose their elongated morphology and become enlarged and spherical before lysis; residue is part of a putative central cavity which is catalytically essential

160 -> 180

LGTSILVALSGLFVLFLSGLS

UniProt: Helical.

183 -> 203

LIGVAVVLVAAFIPILWFFLM

UniProt: Helical.

234 -> 234

suppressor mutation A→T restores growth and rod shape to cells lacking RodZ

240 -> 240

L → S: results in a dominant negative phenotype in which cells display morphological abnormality; residue is implicated in a putative RodA-PBP2 interface

249 -> 249

suppressor mutation T→P restores growth and rod shape to cells lacking RodZ

262 -> 262

D → N: mutation is predicted to disrupt glycosyltransferase activity; results in gradual cessation in MreB rotation

263 -> 283

FIFAVLAEELGLVGILILLAL

UniProt: Helical.

281 -> 281

L → A: results in a dominant negative phenotype in which cells display morphological abnormality; residue is implicated in a putative RodA-PBP2 interface

312 -> 332

LILFVYVFVNIGMVSGILPVV

UniProt: Helical.

326 -> 326

S → A: results in a dominant negative phenotype in which cells display morphological abnormality; residue is implicated in a putative RodA-PBP2 interface

336 -> 356

LPLVSYGGSALIVLMAGFGIV

UniProt: Helical.

Multifun Terms (GenProtEC)

4 - transport --> 4.9.B - Putative uncharacterized transport protein

5 - cell processes --> 5.1 - cell division

6 - cell structure --> 6.1 - membrane

Gene Ontology Terms (GO)

cellular_component

GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
GO:0032153 - cell division site

molecular_function

GO:0005515 - protein binding
GO:0016757 - glycosyltransferase activity
GO:0016740 - transferase activity
GO:0008955 - peptidoglycan glycosyltransferase activity
GO:0015648 - lipid-linked peptidoglycan transporter activity

biological_process

GO:0051301 - cell division
GO:0009252 - peptidoglycan biosynthetic process
GO:0008360 - regulation of cell shape
GO:0071555 - cell wall organization
GO:0015836 - lipid-linked peptidoglycan transport

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	rlpAp7	665213	reverse	nd	[ICWHO]	[12]
promoter	rlpAp5	665222	reverse	nd	[ICWHO]	[12]
promoter	TSS_757	665332	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_758	665461	reverse	nd	[RS-EPT-CBR]	[13]
promoter	TSS_759	667132	reverse	nd	[RS-EPT-CBR]	[13]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

rlpAp7

665213

reverse

[ICWHO]

[12]

promoter

rlpAp5

665222

reverse

[ICWHO]

[12]

promoter

TSS_757

665332

reverse

[RS-EPT-CBR]

[13]

promoter

TSS_758

665461

reverse

[RS-EPT-CBR]

[13]

promoter

TSS_759

667132

reverse

[RS-EPT-CBR]

[13]

Evidence
[ICWHO] Inferred computationally without human oversight
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Evidence

[ICWHO] Inferred computationally without human oversight

[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Begg KJ., Donachie WD., 1985, Cell shape and division in Escherichia coli: experiments with shape and division mutants., J Bacteriol 163(2):615-22
[2] Begg KJ., Donachie WD., 1998, Division planes alternate in spherical cells of Escherichia coli., J Bacteriol 180(9):2564-7
[3] Begg KJ., Spratt BG., Donachie WD., 1986, Interaction between membrane proteins PBP3 and rodA is required for normal cell shape and division in Escherichia coli., J Bacteriol 167(3):1004-8
[4] Begg KJ., Takasuga A., Edwards DH., Dewar SJ., Spratt BG., Adachi H., Ohta T., Matsuzawa H., Donachie WD., 1990, The balance between different peptidoglycan precursors determines whether Escherichia coli cells will elongate or divide., J Bacteriol 172(12):6697-703
[5] Bylund JE., Haines MA., Walsh K., Bouloc P., D'Ari R., Higgins ML., 1991, Buoyant density studies of several mecillinam-resistant and division mutants of Escherichia coli., J Bacteriol 173(17):5396-402
[6] Garcia del Portillo F., de Pedro MA., 1991, Penicillin-binding protein 2 is essential for the integrity of growing cells of Escherichia coli ponB strains., J Bacteriol 173(14):4530-2
[7] Matsuhashi M., Wachi M., Ishino F., 1990, Machinery for cell growth and division: penicillin-binding proteins and other proteins., Res Microbiol 141(1):89-103
[8] Spratt BG., Boyd A., Stoker N., 1980, Defective and plaque-forming lambda transducing bacteriophage carrying penicillin-binding protein-cell shape genes: genetic and physical mapping and identification of gene products from the lip-dacA-rodA-pbpA-leuS region of the Escherichia coli chromosome., J Bacteriol 143(2):569-81
[9] Tamaki S., Matsuzawa H., Matsuhashi M., 1980, Cluster of mrdA and mrdB genes responsible for the rod shape and mecillinam sensitivity of Escherichia coli., J Bacteriol 141(1):52-7
[10] Vinella D., Joseleau-Petit D., Thevenet D., Bouloc P., D'Ari R., 1993, Penicillin-binding protein 2 inactivation in Escherichia coli results in cell division inhibition, which is relieved by FtsZ overexpression., J Bacteriol 175(20):6704-10
[11] de Pedro MA., Donachie WD., Holtje JV., Schwarz H., 2001, Constitutive septal murein synthesis in Escherichia coli with impaired activity of the morphogenetic proteins RodA and penicillin-binding protein 2., J Bacteriol 183(14):4115-26
[12] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78
[13] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

Reference(s)

[1] Begg KJ., Donachie WD., 1985, Cell shape and division in Escherichia coli: experiments with shape and division mutants., J Bacteriol 163(2):615-22

[2] Begg KJ., Donachie WD., 1998, Division planes alternate in spherical cells of Escherichia coli., J Bacteriol 180(9):2564-7

[3] Begg KJ., Spratt BG., Donachie WD., 1986, Interaction between membrane proteins PBP3 and rodA is required for normal cell shape and division in Escherichia coli., J Bacteriol 167(3):1004-8

[4] Begg KJ., Takasuga A., Edwards DH., Dewar SJ., Spratt BG., Adachi H., Ohta T., Matsuzawa H., Donachie WD., 1990, The balance between different peptidoglycan precursors determines whether Escherichia coli cells will elongate or divide., J Bacteriol 172(12):6697-703

[5] Bylund JE., Haines MA., Walsh K., Bouloc P., D'Ari R., Higgins ML., 1991, Buoyant density studies of several mecillinam-resistant and division mutants of Escherichia coli., J Bacteriol 173(17):5396-402

[6] Garcia del Portillo F., de Pedro MA., 1991, Penicillin-binding protein 2 is essential for the integrity of growing cells of Escherichia coli ponB strains., J Bacteriol 173(14):4530-2

[7] Matsuhashi M., Wachi M., Ishino F., 1990, Machinery for cell growth and division: penicillin-binding proteins and other proteins., Res Microbiol 141(1):89-103

[8] Spratt BG., Boyd A., Stoker N., 1980, Defective and plaque-forming lambda transducing bacteriophage carrying penicillin-binding protein-cell shape genes: genetic and physical mapping and identification of gene products from the lip-dacA-rodA-pbpA-leuS region of the Escherichia coli chromosome., J Bacteriol 143(2):569-81

[9] Tamaki S., Matsuzawa H., Matsuhashi M., 1980, Cluster of mrdA and mrdB genes responsible for the rod shape and mecillinam sensitivity of Escherichia coli., J Bacteriol 141(1):52-7

[10] Vinella D., Joseleau-Petit D., Thevenet D., Bouloc P., D'Ari R., 1993, Penicillin-binding protein 2 inactivation in Escherichia coli results in cell division inhibition, which is relieved by FtsZ overexpression., J Bacteriol 175(20):6704-10

[11] de Pedro MA., Donachie WD., Holtje JV., Schwarz H., 2001, Constitutive septal murein synthesis in Escherichia coli with impaired activity of the morphogenetic proteins RodA and penicillin-binding protein 2., J Bacteriol 183(14):4115-26

[12] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

[13] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.