Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118485
Name   oriT_FDAARGOS_431|unnamed1 in_silico
Organism   Raoultella ornithinolytica strain FDAARGOS_431
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023893 (83405..83454 [-], 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_FDAARGOS_431|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11736 GenBank   WP_099144855
Name   traI_CRN13_RS28855_FDAARGOS_431|unnamed1 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: 190769.64 Da        Isoelectric Point: 6.1906

>WP_099144855.1 conjugative transfer relaxase/helicase TraI [Raoultella ornithinolytica]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAENMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETAMVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRIWAEPAPVAPVPQTGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   13746 GenBank   WP_016831058
Name   traD_CRN13_RS28850_FDAARGOS_431|unnamed1 insolico UniProt ID   _
Length   760 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 760 a.a.        Molecular weight: 84900.95 Da        Isoelectric Point: 5.0541

>WP_016831058.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYAAWLADDQTQRDMQRREEVNINHNHRHDEQDDVEIGGNI

  Protein domains


Predicted by InterproScan.

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

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 82847..111524

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CRN13_RS28620 (CRN13_28470) 78855..79211 + 357 WP_064161369 hypothetical protein -
CRN13_RS28625 (CRN13_28475) 79272..79484 + 213 WP_019706020 hypothetical protein -
CRN13_RS28630 (CRN13_28480) 79495..79719 + 225 WP_014343499 hypothetical protein -
CRN13_RS28635 (CRN13_28485) 79800..80120 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
CRN13_RS28640 (CRN13_28490) 80110..80388 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
CRN13_RS28645 (CRN13_28495) 80389..80802 + 414 WP_064161368 type II toxin-antitoxin system HigA family antitoxin -
CRN13_RS28660 (CRN13_28520) 81631..82452 + 822 WP_004152492 DUF932 domain-containing protein -
CRN13_RS28665 (CRN13_28525) 82485..82814 + 330 WP_011977736 DUF5983 family protein -
CRN13_RS28670 (CRN13_28530) 82847..83332 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
CRN13_RS28675 (CRN13_28535) 83723..84139 + 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
CRN13_RS28680 (CRN13_28540) 84339..85076 + 738 WP_013214018 conjugal transfer protein TrbJ -
CRN13_RS28685 (CRN13_28545) 85191..85397 + 207 WP_171773970 TraY domain-containing protein -
CRN13_RS28690 (CRN13_28550) 85459..85827 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
CRN13_RS28695 (CRN13_28555) 85841..86146 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
CRN13_RS28700 (CRN13_28560) 86166..86732 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
CRN13_RS28705 (CRN13_28565) 86719..87459 + 741 WP_064161334 type-F conjugative transfer system secretin TraK traK
CRN13_RS28710 (CRN13_28570) 87459..88883 + 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
CRN13_RS28715 (CRN13_28575) 88955..89539 + 585 WP_023287136 type IV conjugative transfer system lipoprotein TraV traV
CRN13_RS28720 (CRN13_28580) 89862..90080 + 219 WP_004195468 hypothetical protein -
CRN13_RS28725 (CRN13_28585) 90081..90392 + 312 WP_013214022 hypothetical protein -
CRN13_RS28730 (CRN13_28590) 90459..90863 + 405 WP_004197817 hypothetical protein -
CRN13_RS28745 (CRN13_28605) 91240..91638 + 399 WP_014343490 hypothetical protein -
CRN13_RS28750 (CRN13_28610) 91710..94349 + 2640 WP_013214024 type IV secretion system protein TraC virb4
CRN13_RS28755 (CRN13_28615) 94349..94738 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
CRN13_RS28760 (CRN13_28620) 94738..95373 + 636 WP_064161338 type-F conjugative transfer system protein TraW traW
CRN13_RS28765 (CRN13_28625) 95408..95809 + 402 WP_004194979 hypothetical protein -
CRN13_RS28770 (CRN13_28630) 95806..96795 + 990 WP_032441886 conjugal transfer pilus assembly protein TraU traU
CRN13_RS28775 (CRN13_28635) 96808..97446 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
CRN13_RS28780 (CRN13_28640) 97505..99460 + 1956 WP_023287134 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CRN13_RS28785 (CRN13_28645) 99492..99746 + 255 WP_023287133 conjugal transfer protein TrbE -
CRN13_RS28790 (CRN13_28650) 99724..99972 + 249 WP_013214029 hypothetical protein -
CRN13_RS28795 (CRN13_28655) 99985..100311 + 327 WP_004152676 hypothetical protein -
CRN13_RS28800 (CRN13_28660) 100332..101084 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
CRN13_RS28805 (CRN13_28665) 101095..101334 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
CRN13_RS28810 (CRN13_28670) 101306..101863 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CRN13_RS28815 (CRN13_28675) 101909..102352 + 444 WP_025712708 F-type conjugal transfer protein TrbF -
CRN13_RS28820 (CRN13_28680) 102330..103709 + 1380 WP_074187349 conjugal transfer pilus assembly protein TraH traH
CRN13_RS28825 (CRN13_28685) 103709..106552 + 2844 WP_020805032 conjugal transfer mating-pair stabilization protein TraG traG
CRN13_RS28830 (CRN13_28690) 106563..107096 + 534 WP_004197891 hypothetical protein -
CRN13_RS28840 (CRN13_28700) 107504..108233 + 730 Protein_122 conjugal transfer complement resistance protein TraT -
CRN13_RS30315 108426..109115 + 690 WP_072159541 hypothetical protein -
CRN13_RS28850 (CRN13_28710) 109242..111524 + 2283 WP_016831058 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18918 GenBank   NZ_CP023893
Plasmid name   FDAARGOS_431|unnamed1 Incompatibility group   IncFIB
Plasmid size   231294 bp Coordinate of oriT [Strand]   83405..83454 [-]
Host baterium   Raoultella ornithinolytica strain FDAARGOS_431

Cargo genes

Drug resistance gene   mcr-10
Virulence gene   -
Metal resistance gene   pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE, ncrY, ncrC, ncrB, ncrA, arsB, arsC, arsR, arsD, arsA, arsH, pcoE, pcoS, pcoR, pcoD, pcoC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9