Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100519
Name   oriT_pHN3A11 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_020278 (39311..39860 [-], 550 nt)
oriT length   550 nt
IRs (inverted repeats)      243..255, 257..269  (TATTTAATAATTC..GAATTATTAAATA)
 311..318, 321..328  (GCAAAAAC..GTTTTTGC)
Location of nic site      337..338
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 550 nt

>oriT_pHN3A11
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   590 GenBank   YP_007447578
Name   TraI_pHN3A11 insolico UniProt ID   Q6SIZ4
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191683.22 Da        Isoelectric Point: 5.6912

>YP_007447578.1 conjugal transfer DNA-nicking and unwinding protein TraI (plasmid) [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQIERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)

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: 38923..67075

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTA55_RS00220 (pHN3A11_040) 34895..35329 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
HTA55_RS00225 (pHN3A11_041) 35326..36088 + 763 Protein_45 plasmid SOS inhibition protein A -
HTA55_RS00480 (pHN3A11_042) 36267..36416 + 150 Protein_46 plasmid maintenance protein Mok -
HTA55_RS00230 (pHN3A11_044) 36358..36483 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HTA55_RS00235 (pHN3A11_045) 36802..37098 - 297 Protein_48 hypothetical protein -
HTA55_RS00240 (pHN3A11_046) 37398..37694 + 297 WP_001272251 hypothetical protein -
HTA55_RS00245 (pHN3A11_047) 37805..38626 + 822 WP_001234445 DUF932 domain-containing protein -
HTA55_RS00250 (pHN3A11_048) 38923..39525 - 603 WP_000243713 transglycosylase SLT domain-containing protein virB1
HTA55_RS00255 (pHN3A11_049) 39848..40231 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HTA55_RS00260 (pHN3A11_050) 40425..41096 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HTA55_RS00265 (pHN3A11_051) 41233..41460 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HTA55_RS00270 (pHN3A11_052) 41493..41852 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HTA55_RS00275 (pHN3A11_053) 41867..42178 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HTA55_RS00280 (pHN3A11_054) 42200..42766 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HTA55_RS00285 (pHN3A11_055) 42753..43481 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HTA55_RS00290 (pHN3A11_056) 43481..44932 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HTA55_RS00295 (pHN3A11_057) 44922..45488 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HTA55_RS00300 (pHN3A11_058) 45475..45795 + 321 WP_001057307 conjugal transfer protein TrbD -
HTA55_RS00305 (pHN3A11_059) 45792..46307 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HTA55_RS00310 (pHN3A11_060) 46442..46663 + 222 WP_001278683 conjugal transfer protein TraR -
HTA55_RS00315 (pHN3A11_061) 46656..47132 + 477 WP_000549587 hypothetical protein -
HTA55_RS00320 (pHN3A11_062) 47212..47430 + 219 WP_000556745 hypothetical protein -
HTA55_RS00325 (pHN3A11_063) 47458..47805 + 348 WP_000836682 hypothetical protein -
HTA55_RS00330 (pHN3A11_064) 47931..50561 + 2631 WP_000069777 type IV secretion system protein TraC virb4
HTA55_RS00335 (pHN3A11_065) 50558..50944 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HTA55_RS00340 (pHN3A11_066) 50941..51573 + 633 WP_001203728 type-F conjugative transfer system protein TraW traW
HTA55_RS00345 (pHN3A11_067) 51570..52562 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTA55_RS00350 (pHN3A11_068) 52592..52897 + 306 WP_000224416 hypothetical protein -
HTA55_RS00355 (pHN3A11_069) 52906..53544 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTA55_RS00360 (pHN3A11_070) 53541..55391 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTA55_RS00365 (pHN3A11_071) 55418..55675 + 258 WP_000864353 conjugal transfer protein TrbE -
HTA55_RS00370 (pHN3A11_072) 55668..56411 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HTA55_RS00375 (pHN3A11_073) 56425..56769 + 345 WP_000556796 conjugal transfer protein TrbA -
HTA55_RS00380 (pHN3A11_074) 56888..57172 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HTA55_RS00385 (pHN3A11_075) 57159..57704 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTA55_RS00390 (pHN3A11_076) 57634..57981 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HTA55_RS00395 (pHN3A11_077) 57962..58354 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HTA55_RS00400 (pHN3A11_078) 58341..59714 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HTA55_RS00405 (pHN3A11_079) 59711..62533 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HTA55_RS00410 (pHN3A11_080) 62549..63034 + 486 WP_000605870 hypothetical protein -
HTA55_RS00415 (pHN3A11_081) 63083..63814 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HTA55_RS00420 (pHN3A11_082) 64017..64754 + 738 WP_000199905 hypothetical protein -
HTA55_RS00425 (pHN3A11_083) 64805..67075 + 2271 WP_000009328 type IV conjugative transfer system coupling protein TraD prgC

Host bacterium

ID   980 GenBank   NC_020278
Plasmid name   pHN3A11 Incompatibility group   IncFII
Plasmid size   76626 bp Coordinate of oriT [Strand]   39311..39860 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   qepA1, rmtB, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -