oriTDB

The information of the oriT region

oriTDB accession number	100097
Name	oriT_pHH2-227
Sequence Completeness	intact
oriT length	341 nt
oriT sequence	GTGCCATCTGCGCTTTGTGGTCCTAGTTGTGGTCCCAAAAGTATAGCAAACTCGGGCTAT TACGCAACATCTGTGGTCCCTGTAGACCACGGATGTTTAGCGCCATTGCGCCGGAAGTCG TTGAAAATCAACGACTTACGCGCACCGAAAGGTGCGTATTGTCTATAGCCCAGATTTAAG GATACCAACCCTGCTTTTAAGGACGAAAACCATGCCGATAACGCCAGCGTGACCCTAAAG AGGGTCAAAACTGCTCCCAATGCGCTATGCGCATTGGGTTATCGTGCAACAATAATGCAA CTATAATGCTATGATGGTGCGACAATGATGCAGAAAATCAG
IR (inverted repeat)	IR1: [66-78] [85-97] nt (AACATCTGTGGTC..GACCACGGATGTT) IR2: [115-122] [130-137] nt (AAGTCGTT..AACGACTT) IR3: [141-146] [151-156] nt (CGCACC..GGTGCG) IR4: [230-236] [241-247] nt ( TGACCCT..AGGGTCA) IR5: [256-265] [269-278] nt (CCCAATGCGC..GCGCATTGGG)
Location of nic site	[164-165]
Conserved sequence flanking the nic site	TGTCT\|ATAGC
Note	The oriT of pHH2-227 is almost identical to that of R7K.
	L:66-78;R:85-97;L:115-122;R:130-137;L:141-146;R:151-156;L:230-236;R:241-247;L:256-265;R:269-278;D:164-165

Visualization of oriT structure

1...5....10....15....20....25....30....35....40....45....50....55....60

1

GTGCCATCTGCGCTTTGTGGTCCTAGTTGTGGTCCCAAAAGTATAGCAAACTCGGGCTAT

61

TACGCAACATCTGTGGTCCCTGTAGACCACGGATGTTTAGCGCCATTGCGCCGGAAGTCG

121

TTGAAAATCAACGACTTACGCGCACCGAAAGGTGCGTATTGTCTATAGCCCAGATTTAAG

181

GATACCAACCCTGCTTTTAAGGACGAAAACCATGCCGATAACGCCAGCGTGACCCTAAAG

241

AGGGTCAAAACTGCTCCCAATGCGCTATGCGCATTGGGTTATCGTGCAACAATAATGCAA

301

CTATAATGCTATGATGGTGCGACAATGATGCAGAAAATCAG

Reference

[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]

I. Information of Relaxase

ID	92
Name	TrwC_pHH2-227
GenBank accession number	AEY63615
Family	MOB_F
Length	966 aa
UniProt ID	H2DDW0
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 1.20E-83, Aligned region: 12..288 AAA_30 [PF13604.5], Evalue: 1.30E-45, Aligned region: 472..659 Viral_helicase1 [PF01443.17], Evalue: 2.50E-06, Aligned region: 492..697 UvrD_C_2 [PF13538.5], Evalue: 3.90E-07, Aligned region: 847..894 AAA_19 [PF13245.5], Evalue: 8.60E-06, Aligned region: 477..601
Note	conjugative relaxase
Protein sequence [Download]	MLSHMVLTRQDIGRAASYYEDGADDYYAKDGDASEWQGKGAEELGLSGEVDSKRFRELLA GNIGEGHRIMRSATRQDSKERIGLDLTFSAPKSVSLQALVAGDAEIIKAHDRAVARTLEQ AEARAQARQKIQGKTRIETTGNLVIGKFRHETSRERDPQLHTHAVILNMTKRSDGQWRAL KNDEIVKATRYLGAVYNAELAHELQKLGYQLRYGKDGNFDLAHIDRQQIEGFSKRTEQIA EWYAARGLDPNSVSLEQKQAAKVLSRAKKTSVDREALRAEWQATAKELGIDFSRREWSGR EKGGSEKQAHSFMPSDEAAKRAVRYAINHLTERQSVMDERELVDTAMKHAVGAARLEDIQ KELLRQTETGYLIREAPRYRPGGQTGPTDEPGKTRAEWIAELAAKGMKQGAARERVDNAI KTGGLVPIEPRYTTQTALEREKRILQIERDGRGAVAPVIAAEAARERLASTNLNQGQREA AELIVSAANRVVGVQGFAGTGKSHMLDTAKQMIEGEGYHVRALAPYGSQVKALRELNVEA NTLASFLRAKDKNIDSRTVLVIDEAGVVPTRLMEQTLKLAEKAGARVVLMGDTAQTKAIE AGRPFDQLQAAGMQTAHMREIQRQKNPELKIAVELAAAGKASSSLERIKDVTEIKNHHER RAAVAEAYIALKPDERDRTLIVSGTNEARREINQIVREGLGTAGKGIEFDTLVRVDTTQA ERRHSKNYQVGHVIQPERDYAKTGLQRGELYRVVETGPGNRLTVIGEHDGQRIQFSPMTH TKISVYQPERAELAVGDTIRITRNDKHLDLANGDRMKVVAVEDRKVTVTDGKRNVELPTD KPLHVDHAYATTVHSSQGLTSDRVLIDAHAESRTTAKDVYYVAISRARFEARVFTNDRGK LPAAIARENIKSAAHDLARDRGGRSAAAERQREQQREAERNRQTQQPAHDRQKAAREAER GMEAGR

Reference

[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]

II. Auxiliary DNA-binding protein(s) of the relaxosome

#	ID	Name	GenBank	Length	Note
1	133	TrwA_pHH2-227	AEY63617	121 aa	relaxosome accessory protein TrwA

Information of T4CP

ID	92
Name	TrwB_pHH2-227
SecReT4 accesion number	_
GenBank accession number	AEY63616
Family	TrwB/TraD
Length	507
UniProt ID	H2DDW1
PDB ID	_
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 6.60E-97, Aligned region: 109..491 TraG-D_C [PF12696.6], Evalue: 2.70E-21, Aligned region: 350..472 T4SS-DNA_transf [PF02534.13], Evalue: 1.50E-12, Aligned region: 297..489
Note	coupling protein TrwB
Protein sequence [Download]	MHPDDQRKVSAGIVIVLPLIFWITAVQKTEVLGSPKLLALWELMKLTPQKPILLLSALGG LAVGVLFVWLLNSVGQGEFGGAPFKRFLRGTRIVSGGKLKRMTREKAKQVTVAGVPMPRD AEPRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNGDMLSKFGRDKDVILNPYDK RTKGWSFFNEIRNDYDWQRYALSVVPRGKTDEAEEWASYGRLLLRETAKKLALIGTPSMR ELFHWTTIATFDDLRGFLEGTLAESLFAGSNEASKALTSARFVLSDKLPEHVTMPDGDFS IRSWLEDPNGGNLFITWREDMGPALRPLISAWVDVVCTSILSLPEEPKRRLWLFIDELAS LEKLASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVKEAQTLRASFRSLVVLGGSRTDP KTNEDMSLSLGEHEVERDRYSKNTGKHHSTGRALERVRERVVMPAEIANLPDLTAYVGFA GNRPIAKVPLEIKQFANRQPAFVEGTI

Reference
N/A

Information of plasmid

ID	92
Plasmid name	pHH2-227
GenBank accession number	JN581942.1
Incompatibility group	IncW
Genome size	38963 bp
Coordinate of oriT [Strand]
Drug resistance	resistance to tetracycline and sulfonamide
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Uncultured bacterium [77133]

Reference

[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]