Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100437
Name   oriT_pChi7122-2 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019037 (39473..39922 [+], 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_pChi7122-2
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   508 GenBank   YP_006902903
Name   PutativerelaxaseofpChi7122-2 insolico UniProt ID   H1ZXR3
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191927.68 Da        Isoelectric Point: 5.7971

>YP_006902903.1 conjugal transfer pilin DNA helicase I (plasmid) [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRTEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEEAMTVVVPGRAEPATLPVVDSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRNVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGISKDDRLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSEDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1155)

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

(633-712)

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: 12108..40407

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXG19_RS00065 (MM2_015) 12108..14297 - 2190 WP_015057092 type IV conjugative transfer system coupling protein TraD virb4
HXG19_RS00070 (MM2_016) 14550..15281 - 732 WP_000850429 conjugal transfer complement resistance protein TraT -
HXG19_RS00075 (MM2_018) 15313..15816 - 504 WP_015057094 surface exclusion inner membrane protein TraS -
HXG19_RS00080 (MM2_019) 15831..18653 - 2823 WP_001462106 conjugal transfer mating-pair stabilization protein TraG traG
HXG19_RS00085 (MM2_020) 18650..20023 - 1374 WP_001137364 conjugal transfer pilus assembly protein TraH traH
HXG19_RS00090 (MM2_021) 20010..20402 - 393 WP_001744736 F-type conjugal transfer protein TrbF -
HXG19_RS00095 (MM2_022) 20383..20724 - 342 WP_001448115 P-type conjugative transfer protein TrbJ -
HXG19_RS00100 (MM2_023) 20654..21199 - 546 WP_000059832 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HXG19_RS00105 (MM2_024) 21186..21470 - 285 WP_000623730 type-F conjugative transfer system pilin chaperone TraQ -
HXG19_RS00110 (MM2_025) 21597..21935 - 339 WP_001287901 conjugal transfer protein TrbA -
HXG19_RS00115 (MM2_026) 21951..22694 - 744 WP_001403429 type-F conjugative transfer system pilin assembly protein TraF traF
HXG19_RS00120 (MM2_027) 22687..22944 - 258 WP_015057095 conjugal transfer protein TrbE -
HXG19_RS00125 (MM2_028) 22971..24821 - 1851 WP_015057096 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HXG19_RS00130 (MM2_029) 24818..25240 - 423 WP_001229309 HNH endonuclease signature motif containing protein -
HXG19_RS00135 (MM2_030) 25265..25636 - 372 WP_000056333 hypothetical protein -
HXG19_RS00140 (MM2_031) 25633..26271 - 639 WP_015057097 type-F conjugative transfer system pilin assembly protein TrbC trbC
HXG19_RS00145 (MM2_032) 26464..26703 + 240 WP_001064017 hypothetical protein -
HXG19_RS00150 (MM2_033) 26700..26879 - 180 WP_001750891 hypothetical protein -
HXG19_RS00520 26971..27060 - 90 Protein_30 type-F conjugative transfer system pilin assembly protein TrbC -
HXG19_RS00155 (MM2_035) 27140..27280 - 141 WP_015057098 hypothetical protein -
HXG19_RS00160 (MM2_036) 27343..27651 - 309 WP_000412444 hypothetical protein -
HXG19_RS00165 (MM2_037) 27678..28670 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HXG19_RS00170 (MM2_038) 28667..29299 - 633 WP_001203727 type-F conjugative transfer system protein TraW traW
HXG19_RS00175 (MM2_039) 29296..29682 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
HXG19_RS00180 (MM2_040) 29679..32306 - 2628 WP_001064239 type IV secretion system protein TraC virb4
HXG19_RS00185 (MM2_042) 32466..32687 - 222 WP_001278978 conjugal transfer protein TraR -
HXG19_RS00190 (MM2_043) 32822..33337 - 516 WP_000809893 type IV conjugative transfer system lipoprotein TraV traV
HXG19_RS00195 (MM2_044) 33334..33585 - 252 WP_001038341 conjugal transfer protein TrbG -
HXG19_RS00200 (MM2_045) 33578..33898 - 321 WP_001057302 conjugal transfer protein TrbD virb4
HXG19_RS00205 (MM2_046) 33885..34469 - 585 WP_000002795 conjugal transfer pilus-stabilizing protein TraP -
HXG19_RS00210 (MM2_047) 34459..35886 - 1428 WP_015057099 F-type conjugal transfer pilus assembly protein TraB traB
HXG19_RS00215 (MM2_049) 35886..36605 - 720 Protein_43 type-F conjugative transfer system secretin TraK -
HXG19_RS00220 (MM2_051) 36720..37144 - 425 Protein_44 type IV conjugative transfer system protein TraE -
HXG19_RS00225 (MM2_052) 37166..37477 - 312 WP_000012097 type IV conjugative transfer system protein TraL traL
HXG19_RS00230 (MM2_053) 37492..37856 - 365 Protein_46 type IV conjugative transfer system pilin TraA -
HXG19_RS00235 (MM2_055) 37890..38117 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
HXG19_RS00240 (MM2_056) 38211..38897 - 687 WP_015057103 PAS domain-containing protein -
HXG19_RS00245 (MM2_057) 39091..39474 - 384 WP_001151564 conjugal transfer relaxosome DNA-binding protein TraM -
HXG19_RS00250 (MM2_058) 39760..40407 + 648 WP_015057104 transglycosylase SLT domain-containing protein virB1
HXG19_RS00255 (MM2_060) 40704..41525 - 822 WP_015057105 DUF932 domain-containing protein -
HXG19_RS00260 (MM2_061) 41635..41931 - 297 WP_001272251 hypothetical protein -
HXG19_RS00525 (MM2_062) 41954..42118 - 165 WP_249927949 single-stranded DNA-binding protein -
HXG19_RS00530 42401..42654 - 254 Protein_54 hypothetical protein -
HXG19_RS00265 (MM2_065) 42920..43162 - 243 WP_000540588 hypothetical protein -
HXG19_RS00270 (MM2_066) 43221..43544 - 324 WP_000533253 hypothetical protein -
HXG19_RS00275 43840..44095 + 256 Protein_57 hypothetical protein -
HXG19_RS00535 (MM2_069) 44015..44296 - 282 WP_001465039 hypothetical protein -
HXG19_RS00280 (MM2_070) 44389..44511 - 123 WP_223200913 Hok/Gef family protein -
HXG19_RS00540 44456..44608 - 153 Protein_60 DUF5431 family protein -
HXG19_RS00285 (MM2_071) 44726..45244 - 519 WP_001178556 hypothetical protein -

Host bacterium

ID   898 GenBank   NC_019037
Plasmid name   pChi7122-2 Incompatibility group   IncFIC(FII)
Plasmid size   82676 bp Coordinate of oriT [Strand]   39473..39922 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   sul1, qacE, aadA2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -