oriTDB

The information of the oriT region

oriTDB accession number	100030
Name	oriT_p1658/97
Sequence Completeness	intact
oriT length	290 nt
oriT sequence	CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAG CACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAACGG TGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAA GAGAAACTAATTTTTCATAACACTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTT GCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT
IR (inverted repeat)	[225-232] [235-242] nt (GCAAAAAC..GTTTTTGC)
Location of nic site	[251-252] nt
Conserved sequence flanking the nic site	GTGGGGTGT\|GG
Note	_
	L:225-232;R:235-242;D:251-252

Visualization of oriT structure

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

1

CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAG

61

CACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAACGG

121

TGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAA

181

GAGAAACTAATTTTTCATAACACTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTT

241

GCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Reference
N/A

I. Information of Relaxase

ID	29
Name	TraI_p1658/97
GenBank accession number	NP_862951
Family	MOB_F
Length	1756 aa
UniProt ID	Q84A21
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 2.20E-74, Aligned region: 10..284 TraI [PF07057.10], Evalue: 7.60E-56, Aligned region: 1434..1556 AAA_30 [PF13604.5], Evalue: 1.60E-34, Aligned region: 968..1160 AAA_19 [PF13245.5], Evalue: 9.70E-09, Aligned region: 973..1108
Note	conjugal transfer nickase/helicase TraI
Protein sequence [Download]	MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRL PDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEAL ASTRVMTDGQSETVLTGNLVMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKV GKTGFIENVYANQIAFGRLYREKLKEQVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQT IREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMVEWMQTLKETGFDIRAYRDAADQRAD LRTLTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPENGVIERARAG IDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNMKQDE RLSGELITGRRQLLEGMTFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLIIDSGQR TGTGSALMAMKDAGVNTYRWQGGEQRPATIISEPDRNVRYARLAGDFAVSVKAGEESVAQ VSGVREQAMLTQTIRSELKTQGVLGHPEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWN PETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRV TGKIPGLRVSGGDRLQVSSVSEDAMTVVVPGRAEPATLPVSDSPFTALKLENGWVETPGH SVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI KTRAGETSLETAISHQKSALHTPAQQAIHLALPVVESKKLAFSMVDLLTEAKSFAAEGTG FTELGGEINAQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVMPLMER VPGELMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRV VGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDM ARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELREAV YSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEAQQKAMLKGEA FPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDVREKAGELGKEQVM VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLIS PREAVAEGVTLYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQT REIRPGQEQAEQHIDLAYAITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMK QHVQVYTDNRQGWTDAINNAVQKGTAHDVFEPKPDREVMNAERLFSTARELRDVAAGRAV LRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPLTTDDGNGLRGFSGE GRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNPGAIT GGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP DGKTEQAVREIAGQERDRAAITEREAALPEGVLREPQRVREAVREIARENLLQERLQQME RDMVRDLQKEKTLGGD

Reference

[1] Zienkiewicz M et al (2007) Mosaic structure of p1658/97, a 125-kilobase plasmid harboring an active amplicon with the extended-spectrum beta-lactamase gene blaSHV-5. Antimicrob Agents Chemother . 51(4):1164-71. [PMID:17220406]

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

#	ID	Name	GenBank	Length	Note
1	44	TraM_p1658/97	NP_862916	127 aa	conjugal transfer protein TraM
2	45	TraY_p1658/97	NP_862918	131 aa	conjugal transfer protein TraY

Information of T4CP

ID	29
Name	TraD_p1658/97
SecReT4 accesion number	32470004
GenBank accession number	NP_862947
Family	TrwB/TraD
Length	717
UniProt ID	P09130
PDB ID	3D8A
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 3.30E-121, Aligned region: 171..561 TraD_N [PF12615.7], Evalue: 1.80E-29, Aligned region: 31..128 TraG-D_C [PF12696.6], Evalue: 4.90E-19, Aligned region: 419..542 T4SS-DNA_transf [PF02534.13], Evalue: 2.80E-07, Aligned region: 198..510
Note	Type IV Secretion System Coupling Protein
Protein sequence [Download]	MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWIKISWQTFVNGCIY WWCTTLEGMRDLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCSEQLWSAFVLAAVVAL VICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPII RDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVKSYYDPSIDKILNP LDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRS YSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHN GEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRA FFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSL PDLTCYVTLPGPYPAVKLSLKYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMA SLFEPDVPEVVSGEDVTQAEQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQ QLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

Reference

[1] Zienkiewicz M et al (2007) . Antimicrob Agents Chemother . 51(4):1164-71. [PMID:17220406]

Information of plasmid

ID	29
Plasmid name	p1658/97
GenBank accession number	NC_004998.1
Incompatibility group	IncF
Genome size	125491 bp
Coordinate of oriT [Strand]	2103..2392 [-]
Drug resistance	extended-spectrum beta-lactamase gene bla_SHV-5
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Escherichia coli [562]

Reference

[1] Zienkiewicz M et al (2007) Mosaic structure of p1658/97, a 125-kilobase plasmid harboring an active amplicon with the extended-spectrum beta-lactamase gene blaSHV-5. Antimicrob Agents Chemother . 51(4):1164-71. [PMID:17220406]