Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105939
Name   oriT_pMB3093_1 in_silico
Organism   Enterobacter hormaechei strain 3131
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP103723 (27482..27531 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pMB3093_1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4006 GenBank   WP_259425887
Name   traI_M5R19_RS23730_pMB3093_1 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190261.82 Da        Isoelectric Point: 6.0881

>WP_259425887.1 conjugative transfer relaxase/helicase TraI [Enterobacter hormaechei]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGSSPGRFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASEGLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

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

(634-713)

AAA domain (AAA_30)

(970-1156)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   4012 GenBank   WP_095849274
Name   traD_M5R19_RS23725_pMB3093_1 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86057.13 Da        Isoelectric Point: 5.1819

>WP_095849274.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRRDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26924..56890

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
M5R19_RS23505 (M5R19_23505) 21965..22126 + 162 Protein_28 hypothetical protein -
M5R19_RS24635 22057..22293 - 237 WP_306046130 hypothetical protein -
M5R19_RS23510 (M5R19_23510) 22275..23255 - 981 WP_020806188 IS5-like element ISKpn26 family transposase -
M5R19_RS23515 (M5R19_23515) 23348..23560 + 213 WP_019706020 hypothetical protein -
M5R19_RS23520 (M5R19_23520) 23571..23795 + 225 WP_014343499 hypothetical protein -
M5R19_RS23525 (M5R19_23525) 23876..24196 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
M5R19_RS23530 (M5R19_23530) 24186..24464 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
M5R19_RS23535 (M5R19_23535) 24465..24878 + 414 WP_023287139 helix-turn-helix domain-containing protein -
M5R19_RS23540 (M5R19_23540) 25708..26529 + 822 WP_023316395 DUF932 domain-containing protein -
M5R19_RS23545 (M5R19_23545) 26562..26891 + 330 WP_053390269 DUF5983 family protein -
M5R19_RS23550 (M5R19_23550) 26924..27409 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
M5R19_RS23555 (M5R19_23555) 27800..28216 + 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
M5R19_RS23560 (M5R19_23560) 28416..29153 + 738 WP_013214018 conjugal transfer protein TrbJ -
M5R19_RS23565 (M5R19_23565) 29268..29474 + 207 WP_171773970 TraY domain-containing protein -
M5R19_RS23570 (M5R19_23570) 29536..29904 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
M5R19_RS23575 (M5R19_23575) 29918..30223 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
M5R19_RS23580 (M5R19_23580) 30243..30809 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
M5R19_RS23585 (M5R19_23585) 30796..31536 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
M5R19_RS23590 (M5R19_23590) 31536..32960 + 1425 WP_013214020 F-type conjugal transfer pilus assembly protein TraB traB
M5R19_RS23595 (M5R19_23595) 33033..33617 + 585 WP_023287136 type IV conjugative transfer system lipoprotein TraV traV
M5R19_RS23600 (M5R19_23600) 33940..34158 + 219 WP_004195468 hypothetical protein -
M5R19_RS23605 (M5R19_23605) 34159..34470 + 312 WP_013214022 hypothetical protein -
M5R19_RS23610 (M5R19_23610) 34537..34941 + 405 WP_004197817 hypothetical protein -
M5R19_RS23615 (M5R19_23615) 35319..35717 + 399 WP_014343490 hypothetical protein -
M5R19_RS23620 (M5R19_23620) 35789..38428 + 2640 WP_013214024 type IV secretion system protein TraC virb4
M5R19_RS23625 (M5R19_23625) 38428..38817 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
M5R19_RS23630 (M5R19_23630) 38817..39452 + 636 WP_013214026 type-F conjugative transfer system protein TraW traW
M5R19_RS23635 (M5R19_23635) 39487..39888 + 402 WP_004194979 hypothetical protein -
M5R19_RS23640 (M5R19_23640) 39885..40874 + 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
M5R19_RS23645 (M5R19_23645) 40887..41525 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
M5R19_RS23650 (M5R19_23650) 41584..43539 + 1956 WP_095849276 type-F conjugative transfer system mating-pair stabilization protein TraN traN
M5R19_RS23655 (M5R19_23655) 43571..43825 + 255 WP_004152674 conjugal transfer protein TrbE -
M5R19_RS23660 (M5R19_23660) 43803..44027 + 225 WP_259425903 hypothetical protein -
M5R19_RS23670 (M5R19_23670) 45320..45403 + 84 Protein_62 hypothetical protein -
M5R19_RS23675 (M5R19_23675) 45416..45742 + 327 WP_004144402 hypothetical protein -
M5R19_RS23680 (M5R19_23680) 45763..46515 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
M5R19_RS23685 (M5R19_23685) 46526..46765 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
M5R19_RS23690 (M5R19_23690) 46737..47294 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
M5R19_RS23695 (M5R19_23695) 47340..47783 + 444 WP_013214032 F-type conjugal transfer protein TrbF -
M5R19_RS23700 (M5R19_23700) 47761..49140 + 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
M5R19_RS23705 (M5R19_23705) 49140..51962 + 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
M5R19_RS23710 (M5R19_23710) 51985..52587 + 603 WP_013214035 conjugal transfer protein TraS -
M5R19_RS23715 (M5R19_23715) 52838..53569 + 732 WP_013214036 conjugal transfer complement resistance protein TraT -
M5R19_RS23720 (M5R19_23720) 53762..54451 + 690 WP_014343485 hypothetical protein -
M5R19_RS23725 (M5R19_23725) 54578..56890 + 2313 WP_095849274 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6376 GenBank   NZ_CP103723
Plasmid name   pMB3093_1 Incompatibility group   IncFII
Plasmid size   105371 bp Coordinate of oriT [Strand]   27482..27531 [-]
Host baterium   Enterobacter hormaechei strain 3131

Cargo genes

Drug resistance gene   qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -