Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100404
Name   oriT_pAA in_silico
Organism   Escherichia coli 042
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_017627 (83354..83803 [+], 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_pAA
ATATGTATACCTCTTTATTTTCTTATCGAATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   475 GenBank   WP_000986978
Name   TraI_pAA insolico UniProt ID   D3H556
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191743.34 Da        Isoelectric Point: 5.9364

>WP_000986978.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEGASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETHTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREMQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKAGLHTPAHQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGVSKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRTATSERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 57181..84288

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EC042_RS26565 (EC042_pAA069) 57181..59532 - 2352 WP_000009342 type IV conjugative transfer system coupling protein TraD prgC
EC042_RS26570 (EC042_pAA070) 59583..60320 - 738 WP_000199915 hypothetical protein -
EC042_RS26575 (EC042_pAA071) 60523..61254 - 732 WP_000850429 conjugal transfer complement resistance protein TraT -
EC042_RS26580 (EC042_pAA072) 61286..61789 - 504 WP_000605508 hypothetical protein -
EC042_RS26585 (EC042_pAA073) 61804..64626 - 2823 WP_001007076 conjugal transfer mating-pair stabilization protein TraG traG
EC042_RS26590 (EC042_pAA074) 64623..65996 - 1374 WP_001137365 conjugal transfer pilus assembly protein TraH traH
EC042_RS26595 (EC042_pAA075) 65983..66375 - 393 WP_000660698 F-type conjugal transfer protein TrbF -
EC042_RS26600 (EC042_pAA076) 66356..66703 - 348 WP_071821414 P-type conjugative transfer protein TrbJ -
EC042_RS26605 (EC042_pAA077) 66633..67178 - 546 WP_000059820 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EC042_RS26610 (EC042_pAA078) 67165..67449 - 285 WP_000623730 type-F conjugative transfer system pilin chaperone TraQ -
EC042_RS26615 (EC042_pAA079) 67576..67914 - 339 WP_001287905 conjugal transfer protein TrbA -
EC042_RS26620 (EC042_pAA080) 67930..68673 - 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
EC042_RS26625 (EC042_pAA081) 68666..68923 - 258 WP_000864329 conjugal transfer protein TrbE -
EC042_RS26630 (EC042_pAA082) 68950..70800 - 1851 WP_000821864 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EC042_RS26635 (EC042_pAA083) 70797..71435 - 639 WP_001080257 type-F conjugative transfer system pilin assembly protein TrbC trbC
EC042_RS26640 (EC042_pAA084) 71444..71749 - 306 WP_000224413 hypothetical protein -
EC042_RS26645 (EC042_pAA085) 71779..72771 - 993 WP_000830190 conjugal transfer pilus assembly protein TraU traU
EC042_RS26650 (EC042_pAA086) 72768..73400 - 633 WP_001203729 type-F conjugative transfer system protein TraW traW
EC042_RS26655 (EC042_pAA087) 73397..73783 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
EC042_RS26660 (EC042_pAA088) 73780..76407 - 2628 WP_001064267 type IV secretion system protein TraC virb4
EC042_RS29150 (EC042_pAA089) 76567..76788 - 222 WP_001278977 conjugal transfer protein TraR -
EC042_RS26670 (EC042_pAA090) 76923..77438 - 516 WP_000809883 type IV conjugative transfer system lipoprotein TraV traV
EC042_RS26675 (EC042_pAA091) 77435..77755 - 321 WP_001057278 conjugal transfer protein TrbD -
EC042_RS26680 (EC042_pAA092) 77742..78302 - 561 WP_000896604 conjugal transfer pilus-stabilizing protein TraP -
EC042_RS26685 (EC042_pAA093) 78292..79743 - 1452 WP_000146647 F-type conjugal transfer pilus assembly protein TraB traB
EC042_RS26690 (EC042_pAA094) 79743..80471 - 729 WP_001230809 type-F conjugative transfer system secretin TraK traK
EC042_RS26695 (EC042_pAA095) 80458..81024 - 567 WP_000399805 type IV conjugative transfer system protein TraE traE
EC042_RS26700 (EC042_pAA096) 81046..81357 - 312 WP_000012116 type IV conjugative transfer system protein TraL traL
EC042_RS26705 (EC042_pAA097) 81372..81737 - 366 WP_001098991 type IV conjugative transfer system pilin TraA -
EC042_RS26710 (EC042_pAA098) 81771..81998 - 228 WP_001254383 conjugal transfer relaxosome protein TraY -
EC042_RS26715 (EC042_pAA099) 82092..82778 - 687 WP_000332487 PAS domain-containing protein -
EC042_RS26720 (EC042_pAA100) 82972..83355 - 384 WP_001151564 conjugal transfer relaxosome DNA-binding protein TraM -
EC042_RS26725 (EC042_pAA101) 83641..84288 + 648 WP_000614288 transglycosylase SLT domain-containing protein virB1
EC042_RS26730 (EC042_pAA102) 84585..85406 - 822 WP_001234445 DUF932 domain-containing protein -
EC042_RS26735 (EC042_pAA103) 85517..85813 - 297 WP_001272251 hypothetical protein -
EC042_RS30890 (EC042_pAA104) 86113..86362 + 250 Protein_97 hypothetical protein -
EC042_RS26755 (EC042_pAA106) 86663..86785 - 123 WP_244421706 type I toxin-antitoxin system Hok family toxin -
EC042_RS31445 (EC042_pAA107) 86730..86882 - 153 Protein_99 DUF5431 family protein -
EC042_RS26765 (EC042_pAA108) 87032..87346 - 315 WP_000872086 hypothetical protein -
EC042_RS26770 (EC042_pAA109) 87343..88062 - 720 WP_001276253 plasmid SOS inhibition protein A -
EC042_RS26775 (EC042_pAA110) 88059..88493 - 435 WP_000845946 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   865 GenBank   NC_017627
Plasmid name   pAA Incompatibility group   IncFIC
Plasmid size   113346 bp Coordinate of oriT [Strand]   83354..83803 [+]
Host baterium   Escherichia coli 042

Cargo genes

Drug resistance gene   -
Virulence gene   aafB, aafC, pet, aafD, aafA, aap/aspU
Metal resistance gene   copper resistance
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -