Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids

Humphrey, Bruce; Thomson, Nicholas R; Thomas, Christopher M; Brooks, Karen; Sanders, Mandy; Delsol, Anne A; Roe, John M; Bennett, Peter M; Enne, Virve I

doi:10.1186/1471-2180-12-53

BMC Microbiology

Table 2 Positions and putative functions of open reading frames identified in plasmid N3

From: Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids

Gene/orf	Position	Putative Function	Closest match (Accession)¹	Protein identity (%)
repA	3-722	Initiation of plasmid replication	pKOX105 (ADH29527)	100
ardK	1282-1623	Regulation of ccg genes	pEC_L46 (ADL14210)	100
mpr	1638-2429	Zinc metalloproteinase	pLEW517 (YP_001096387)	100
mucB	2580-3845	UV protection	pKOX105	100
mucA	3833-4273	UV protection	pEC_L46	100
ardB	4688-5113	Type I antirestriction system	R46 (NP_511215)	99
ardR	5171-5575	Regulator of CUP controlled ccgEII regulon	pEC_L46	100
ccgEIII	5585-5824	Unknown	R46	100
ccgAI	7332-7511	Regulation of ccgAII expression	R46	100
ccgAII	7566-7886	Prevention of RecA overproduction	pKOX105	100
pN3_011	7997-8341	Unknown	R46	100
stbC	8523-8891	Stable plasmid inheritance	R46	100
stbB	8893-9609	Stable plasmid inheritance	pKOX105	100
stbA	9618-10037	Stable plasmid inheritance	pKOX105	100
traK	10528-10944	Conjugal transfer protein	pKOX105	100
traJ	10946-12475	Conjugal transfer protein	pKP96 (YP_002332894)	100
traI	12475-15717	Conjugal nickase and helicase	pKP96	100
fipA	15717-16343	Fertility inhibition of IncP plasmids	pKM101 (AAC63100)	100
nuc	16517-17050	Endonuclease	pKOX105	100
traG	17050-18045	Conjugal transfer protein	pKOX105	100
traF	18087-19247	Conjugal transfer protein	pKOX105	100
traO	19247-20131	Conjugal transfer protein	pEC_L46	100
traE	20142-20840	Conjugal transfer protein	pEC_L46	100
traN	20830-20967	Conjugal transfer protein	pEC_L46	100
traD	21059-22099	Conjugal transfer protein	pEC_L46	100
eex	22115-22342	Entry exclusion	pKOX105	100
traC	22350-23063	Conjugal transfer protein	pKOX105	100
traB	23081-25681	Conjugal transfer protein	pKOX105	100
traA	25681-25998	Conjugal transfer protein	pKOX105	100
traM	26048-26341	Conjugal transfer protein	pKOX105	100
korA	26351-26632	Unknown	R46	100
traL	26641-27375	Conjugal transfer protein	pKOX105	100
korB	27484-27789	DNA binding protein	pKOX105	99
pN3_034	27805-28149	Unknown	pKOX105	100
kikA	28146-28460	Killer protein of TrbM family	pKOX105	100
pN3_036	28496-28807	Unknown	R46	100
mrr	28863-29504	Restriction endonuclease	pKOX105	100
pN3_038	29509-29715	Unknown	pKP96	100
EcoRII met	30055-31530	Modification methylase	pKOX105	100
EcoRII	31564-32778	Type-2 restriction enzyme	pKOX105	100
tnpA	33039-33833	IS6100 transposase	pEK499 (YP_003108355)	100
pN3_042	33999-34724	Unknown	pAPEC-O1-R (YP_001481449)	100
sul1	34938-35777	Sulphonamide resistant dihydropteroate synthase	R46	100
qacEΔ1	35771-36118	Quaternary ammonium compound resistance, truncated	R46	100
aadA2	36282-37073	Aminoglycoside adenyltransferase	p1206 (ACC77487)	100
intI1	37219-38232	Class 1 integrase	pKOX105	100
uvp1	38625-39194	Site specific recombinase	pKOX105	100
tnpA	39506-40210	IS26 transposase	pKOX105	100
pN3_049	40247-40750	Putative shikimate dehydrogenase (repeat protein)	Pantotea sp. (YP_004116848)	59
tet(A)	41265-42464	Tetracycline efflux protein	pQKp331H (ABS19074)	100
tetR	42592-43233	Repressor protein for Tet(A)	pQKp331H	100
pN3_052	43438-43941	Unknown	No good match
pN3_053	44147-44563	Unknown	pLVPK (NP_943518)	59
tnp orfA	44921-45265	IS911 transposase, truncated	Shigella flexneri 2a str. 2457 T (NP_835957)	80
pN3_055	45468-46295	Putative bacitracin resistance protein	Acinetobacter sp. DR1 (YP_003733303)	62
pN3_056	46450-47589	Putative amino acid racemase	Pectobacterium carotovorum PC1 (YP_003017826)	73
pN3_057	47686-48597	Putative LysR-type regulator	Shewanella halifaxensis HAW-EB4 (YP_001674862)	56
pN3_058	48594-49526	Putative amino acid dehydrogenase/cyclodeaminase	Pectobacterium carotovorum subsp. brasiliensis PBR1692 (ZP_03825565)	72
pN3_059	50018-50623	Putative sodium:dicarboxylate symporter	Burkholderia dolosa AUO158 (ZP_04944635)	56
tnpA	50681-51385	IS26 transposase	pKOX105	100
hsdM	51636-53192	Type I restriction enzyme EcoprrI M protein	Escherichia coli B185 (ZP_06660389)	90
pN3_062	53656-54165	Unknown	pKOX105	90

¹ Where more than one protein shares the exact same identity with pN3 an example is given

Back to article page

ISSN: 1471-2180

Contact us

General enquiries: journalsubmissions@springernature.com