Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100332
Name   oriT_pEC14_114 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_013175 (77361..77810 [-], 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    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 450 nt

>oriT_pEC14_114
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAGAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   403 GenBank   YP_003162606
Name   TraI_pEC14_114 insolico UniProt ID   C8CGS7
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191729.35 Da        Isoelectric Point: 5.7956

>YP_003162606.1 conjugal transfer nickase/helicase TraI (plasmid) [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 76876..105265

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS676_RS00435 (pEC14_76) 72855..73289 + 435 WP_000845910 conjugation system SOS inhibitor PsiB -
HS676_RS00440 (pEC14_77) 73286..74049 + 764 Protein_86 plasmid SOS inhibition protein A -
HS676_RS00685 74223..74372 + 150 Protein_87 DUF5431 family protein -
HS676_RS00445 74314..74439 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
HS676_RS00690 (pEC14_78) 74757..75054 - 298 Protein_89 hypothetical protein -
HS676_RS00450 75354..75640 + 287 Protein_90 hypothetical protein -
HS676_RS00455 (pEC14_80) 75759..76580 + 822 WP_172684394 DUF932 domain-containing protein -
HS676_RS00460 (pEC14_81) 76876..77478 - 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
HS676_RS00465 (pEC14_82) 77809..78192 + 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
HS676_RS00470 (pEC14_83) 78386..79072 + 687 WP_000332489 PAS domain-containing protein -
HS676_RS00475 79166..79393 + 228 WP_001254388 conjugal transfer relaxosome protein TraY -
HS676_RS00480 (pEC14_84) 79427..79786 + 360 WP_001098988 type IV conjugative transfer system pilin TraA -
HS676_RS00485 (pEC14_85) 79801..80112 + 312 WP_000012100 type IV conjugative transfer system protein TraL traL
HS676_RS00490 (pEC14_86) 80134..80700 + 567 WP_000399776 type IV conjugative transfer system protein TraE traE
HS676_RS00495 (pEC14_87) 80687..81415 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HS676_RS00500 (pEC14_88) 81415..82841 + 1427 Protein_100 F-type conjugal transfer pilus assembly protein TraB -
HS676_RS00505 (pEC14_89) 82831..83421 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
HS676_RS00510 (pEC14_90) 83408..83728 + 321 WP_001057274 conjugal transfer protein TrbD -
HS676_RS00515 83721..83973 + 253 Protein_103 conjugal transfer protein TrbG -
HS676_RS00520 (pEC14_91) 83970..84485 + 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
HS676_RS00525 84620..84841 + 222 WP_001278694 conjugal transfer protein TraR -
HS676_RS00530 (pEC14_92) 84834..85307 + 474 WP_000549566 hypothetical protein -
HS676_RS00535 85387..85605 + 219 WP_000556746 hypothetical protein -
HS676_RS00540 (pEC14_93) 85972..88602 + 2631 WP_000069778 type IV secretion system protein TraC virb4
HS676_RS00545 (pEC14_94) 88599..88985 + 387 WP_000214082 type-F conjugative transfer system protein TrbI -
HS676_RS00550 (pEC14_95) 88982..89614 + 633 WP_012805974 type-F conjugative transfer system protein TraW traW
HS676_RS00555 (pEC14_96) 89611..90603 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HS676_RS00560 (pEC14_97) 90633..90938 + 306 WP_000224418 hypothetical protein -
HS676_RS00565 (pEC14_98) 90947..91585 + 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS676_RS00570 (pEC14_99) 91582..93432 + 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS676_RS00575 (pEC14_100) 93459..93716 + 258 WP_000864314 conjugal transfer protein TrbE -
HS676_RS00580 (pEC14_101) 93709..94452 + 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
HS676_RS00585 (pEC14_102) 94466..94807 + 342 WP_001298557 conjugal transfer protein TrbA -
HS676_RS00590 94788..95123 - 336 WP_000736414 hypothetical protein -
HS676_RS00595 (pEC14_103) 95204..95488 + 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
HS676_RS00600 (pEC14_104) 95475..96020 + 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS676_RS00605 (pEC14_105) 95950..96297 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HS676_RS00610 (pEC14_106) 96278..96670 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HS676_RS00615 (pEC14_107) 96657..98030 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS676_RS00620 (pEC14_108) 98027..100849 + 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
HS676_RS00625 (pEC14_109) 100865..101350 + 486 WP_000605869 hypothetical protein -
HS676_RS00630 (pEC14_110) 101399..102130 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HS676_RS00635 (pEC14_111) 102333..103070 + 738 WP_000199901 hypothetical protein -
HS676_RS00640 (pEC14_112) 103121..105265 + 2145 WP_000009347 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   793 GenBank   NC_013175
Plasmid name   pEC14_114 Incompatibility group   IncFII
Plasmid size   114222 bp Coordinate of oriT [Strand]   77361..77810 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -