Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100365
Name   oriT_pEC_L8 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_014384 (45584..46033 [-], 450 nt)
oriT length   450 nt
IRs (inverted repeats)      IR1: 201..215, 222..236  (ATTCATTGGTGAATC..GATTCACCAATGAAT)
 IR2: 308..315, 318..325  (GCAAAAAC..GTTTTTGC)
Location of nic site      334..335
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 450 nt

>oriT_pEC_L8
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   436 GenBank   YP_003829160
Name   Nickase_pEC_L8 insolico UniProt ID   D9Z5A4
Length   1757 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1757 a.a.        Molecular weight: 191895.87 Da        Isoelectric Point: 5.9593

>YP_003829160.1 nickase/helicase (plasmid) [Escherichia coli]
MMMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRM
QDGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNL
VMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVE
ALGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQ
TLKETGFDIRAYRDAADQRTEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPP
ENGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGY
SDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITG
RRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYR
WQGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEV
TMTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLD
SSWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALK
LENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQ
IKARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEIN
AQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRM
ILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHD
TQLQQRSGETPDFSNTLFLLDESSMVGNTEMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRS
AADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAE
AQQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQV
MVPVLNTANIRDGELRRLSTWEKNPDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGV
TLYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYA
ITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDV
LEPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSA
GIWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAG
EGRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDL
PDGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQK
EKTLGGD

  Protein domains


Predicted by InterproScan.

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)

AAA domain (AAA_30)

(969-1157)

TrwC relaxase (TrwC)

(11-284)

DNA helicase TraI (TraI_C)

(1435-1558)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(576-627)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 45099..71520

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS695_RS00240 (pECL8_p044) 41066..41500 + 435 WP_000845901 conjugation system SOS inhibitor PsiB -
HS695_RS00245 (pECL8_p045) 41497..42259 + 763 Protein_51 plasmid SOS inhibition protein A -
HS695_RS00250 (pECL8_p046) 42228..42416 - 189 WP_001299721 hypothetical protein -
HS695_RS00700 42438..42587 + 150 Protein_53 plasmid maintenance protein Mok -
HS695_RS00255 42529..42654 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HS695_RS00705 42874..43104 + 231 WP_071587244 hypothetical protein -
HS695_RS00710 43102..43275 - 174 Protein_56 hypothetical protein -
HS695_RS00260 43573..43860 + 288 WP_000107537 hypothetical protein -
HS695_RS00265 43981..44802 + 822 WP_001234469 DUF932 domain-containing protein -
HS695_RS00270 (pECL8_p051) 45099..45746 - 648 WP_000614282 transglycosylase SLT domain-containing protein virB1
HS695_RS00275 (pECL8_p052) 46032..46415 + 384 WP_001151564 conjugal transfer relaxosome DNA-binding protein TraM -
HS695_RS00280 (pECL8_p053) 46609..47295 + 687 WP_000332487 PAS domain-containing protein -
HS695_RS00285 (pECL8_p054) 47389..47616 + 228 WP_001254388 conjugal transfer relaxosome protein TraY -
HS695_RS00290 (pECL8_p055) 47650..48012 + 363 WP_001098998 type IV conjugative transfer system pilin TraA -
HS695_RS00295 (pECL8_p056) 48017..48328 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HS695_RS00300 (pECL8_p057) 48350..48916 + 567 WP_000399804 type IV conjugative transfer system protein TraE traE
HS695_RS00305 (pECL8_p058) 48903..49631 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HS695_RS00310 (pECL8_p059) 49631..51058 + 1428 WP_000146638 F-type conjugal transfer pilus assembly protein TraB traB
HS695_RS00315 (pECL8_p060) 51048..51632 + 585 WP_000002795 conjugal transfer pilus-stabilizing protein TraP -
HS695_RS00320 (pECL8_p061) 51619..51939 + 321 WP_001057302 conjugal transfer protein TrbD virb4
HS695_RS00325 (pECL8_p062) 51932..52183 + 252 WP_001038341 conjugal transfer protein TrbG -
HS695_RS00330 (pECL8_p063) 52180..52695 + 516 WP_000809893 type IV conjugative transfer system lipoprotein TraV traV
HS695_RS00335 (pECL8_p064) 52830..53051 + 222 WP_001278978 conjugal transfer protein TraR -
HS695_RS00340 (pECL8_p065) 53211..55838 + 2628 WP_001064239 type IV secretion system protein TraC virb4
HS695_RS00345 (pECL8_p066) 55835..56221 + 387 WP_000214082 type-F conjugative transfer system protein TrbI -
HS695_RS00350 (pECL8_p067) 56218..56850 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HS695_RS00355 (pECL8_p068) 56847..57839 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HS695_RS00360 (pECL8_p069) 57869..58174 + 306 WP_000224411 hypothetical protein -
HS695_RS00365 (pECL8_p070) 58183..58821 + 639 WP_001080257 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS695_RS00370 (pECL8_p071) 58818..60626 + 1809 WP_000821863 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS695_RS00375 (pECL8_p072) 60653..60910 + 258 WP_000864320 conjugal transfer protein TrbE -
HS695_RS00380 (pECL8_p073) 60903..61646 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS695_RS00385 (pECL8_p074) 61662..62000 + 339 WP_001287905 conjugal transfer protein TrbA -
HS695_RS00390 (pECL8_p075) 62127..62411 + 285 WP_001448202 type-F conjugative transfer system pilin chaperone TraQ -
HS695_RS00395 (pECL8_p076) 62398..62943 + 546 WP_000059824 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS695_RS00400 (pECL8_p077) 62873..63214 + 342 WP_001448115 P-type conjugative transfer protein TrbJ -
HS695_RS00405 (pECL8_p078) 63195..63587 + 393 WP_000660703 F-type conjugal transfer protein TrbF -
HS695_RS00410 (pECL8_p079) 63574..64947 + 1374 WP_001137364 conjugal transfer pilus assembly protein TraH traH
HS695_RS00415 (pECL8_p080) 64944..67763 + 2820 WP_001007057 conjugal transfer mating-pair stabilization protein TraG traG
HS695_RS00420 (pECL8_p081) 67782..68279 + 498 WP_000605861 hypothetical protein -
HS695_RS00425 (pECL8_p082) 68311..69042 + 732 WP_000850422 conjugal transfer complement resistance protein TraT -
HS695_RS00430 (pECL8_p083) 69295..71520 + 2226 WP_052935733 type IV conjugative transfer system coupling protein TraD prgC

Host bacterium

ID   826 GenBank   NC_014384
Plasmid name   pEC_L8 Incompatibility group   IncFIA
Plasmid size   118525 bp Coordinate of oriT [Strand]   45584..46033 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   blaTEM-1B, blaCTX-M-15, tet(A), aac(6')-Ib-cr, blaOXA-1
Virulence gene   vagC/vagD virulence-associated genes
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -