Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106659
Name   oriT_pUnnamed1 in_silico
Organism   Rouxiella badensis subsp. acadiensis strain C173
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP060593 (57229..57315 [-], 87 nt)
oriT length   87 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 87 nt

>oriT_pUnnamed1
AGTACGGGACAGGATATACTTTGTAGCACCGCCTGCACGCAGACGGTCCCACAAAGAGGCCTGGTCAGGGCAAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4406 GenBank   WP_192504570
Name   Relaxase_H2866_RS22760_pUnnamed1 insolico UniProt ID   _
Length   653 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 653 a.a.        Molecular weight: 74921.33 Da        Isoelectric Point: 9.7853

>WP_192504570.1 TraI/MobA(P) family conjugative relaxase [Rouxiella badensis]
MNIIIPPKRRDGRSSFVQLVGYVSVRDDISLKDEIKEDPRFKRPARARGKVFERLVEYMNRTESLAESQL
ISVDARGESRVSVDGVISQHNLLSLESTASEMNGVAMQNSRIKDPVYHFILSWQEDENPTDDQIFKSAQY
ALRRMDMQLHQYMASIHRDTDNVHVHVVANRVNPLTFKAVSVHGDADKMQRICRELELKFNFKVDNGSWV
RDADNQIVRAKRGYKKAPRGAATLEHFGDRESLYTYAVTHCRKDINAMFRDKSATWERMHAVFDRAGLKL
ERRGEGMIVRDRFNPGQTPIKASRLHTSMTLSRIVPKVGEFAPSPLNDADVHDKHVHAAYNDQLHMRDQG
ARQVRRIARAEARQKLKDDYQAYRKSWVKPDLRIAARSREIADSFRAQKVRIRHGVGDPHMRKLMYNVVE
FEREKAMAGLRIQLKAEREQLREEGKARPMTYRVWTEQEALKGSQAAVSQLRGWAYREGRKNRVPFESDN
IIYCAPADDTPVLKADGFSVRVHRDGSAVYSQKGREAIIDRGDTVEVRHPHDYGGINTVVAIDMVSWKSG
EKVEFDGGGYFVASAIGAAARHNQVHTDSMVVPTNDDQLERIRQDDRTLRAHQADNAAYVATAEARYEQR
QREQTHYVDDEHDNPSHRGTFKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(50-311)


  Protein structure



No available structure.




T4CP

ID   4436 GenBank   WP_192504565
Name   trbC_H2866_RS22725_pUnnamed1 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 82017.39 Da        Isoelectric Point: 7.1605

>WP_192504565.1 F-type conjugative transfer protein TrbC [Rouxiella badensis]
MKRMKPVDRIKLGRKVYHTPLEDVALSSGWLTLAIMASLVAGVIWPVTLWVALPVMMFWLPTFLFNEFRM
PLRMPTDMARVDPSTEMRIPGKMLGFLPVTVMRRTMSRAGGILYSGYERTFDAGRELWLSMDDLTRHLIL
MATTGAGKTEMLLGYVLNALSWGKGLIFSDGKAQNDVWFAIASLARRFGREDDLRVINFITGGQSRSQRL
LDNDKSRPQSNTVNPFSLAQETYIIQLMDSMLPAAGNDGGWQEKAKAMIQALIMGLVYKCRKEGKVMSQR
TIQEYLPLREVAKLYQQAVAEDWHDEARLPLKNYLSTLAGFDMALINSPSDWAAEALNQHGYLIQQFTRM
LSLFSDTYGHVFAAGAGDIDLRDVVHNDRILVLLIPALELSSTEAATLGRLTVSQAAMILSQDLGEKLEG
RARDILVVKKYKDRFPFLWIADEVGAYYTEVFGHLATQVRSLGYSLVLAGQDLQRLKSAAGDKIWTLIGN
MFTRVAGTLNDPKETLEMYQKSGGTEYKGVQTAMQREAGAFGGSSFRDTDQITLKEDQRITVEEVQQLNK
GEQITLFQGDVIRGSSLYIGDDDKITGQDIRINRFIEVAAPTVETLMTFMPVKVRWTVPRTDAVTRLLAV
GLDENKGASSHHHPSHIIITDTVLFAVAQETTFMDEVEDTPPRAVERATRLYSLVAAVLGETRGRYQAEH
PQPAKITVKQAALQQYARYHQAMEPEKEPGQK

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(118-569)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 22813..45311

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H2866_RS22580 (H2866_22595) 18428..19324 - 897 WP_192504545 plasmid replication initiator RepA -
H2866_RS22585 (H2866_22600) 19697..20083 - 387 WP_192504546 acyl-CoA thioesterase -
H2866_RS22590 (H2866_22605) 20083..20553 - 471 WP_192504547 hypothetical protein -
H2866_RS22595 (H2866_22610) 20535..21110 - 576 WP_192504548 hypothetical protein -
H2866_RS22600 (H2866_22615) 21384..21917 + 534 WP_157388766 transcription termination/antitermination NusG family protein -
H2866_RS22605 (H2866_22620) 21940..22143 + 204 WP_017493178 hypothetical protein -
H2866_RS22610 (H2866_22625) 22505..22801 + 297 WP_192504549 hypothetical protein -
H2866_RS22615 (H2866_22630) 22813..23298 + 486 WP_017493177 lytic transglycosylase domain-containing protein virB1
H2866_RS22620 (H2866_22635) 23316..23807 + 492 WP_192504550 DotD/TraH family lipoprotein -
H2866_RS22625 (H2866_22640) 23804..24625 + 822 WP_017493175 type IV secretion system DotC family protein traI
H2866_RS22630 (H2866_22645) 24603..25775 + 1173 WP_017493174 plasmid transfer ATPase TraJ virB11
H2866_RS22635 (H2866_22650) 25772..26038 + 267 WP_192504551 IcmT/TraK family protein traK
H2866_RS22640 (H2866_22655) 26059..29034 + 2976 WP_192504552 LPD7 domain-containing protein -
H2866_RS22645 (H2866_22660) 29065..29418 + 354 WP_017493171 hypothetical protein traL
H2866_RS22650 (H2866_22665) 29463..30170 + 708 WP_192504553 DotI/IcmL/TraM family protein traM
H2866_RS22655 (H2866_22670) 30486..31217 + 732 WP_263973745 DotH/IcmK family type IV secretion protein traN
H2866_RS22660 (H2866_22675) 31221..32561 + 1341 WP_192504554 conjugal transfer protein TraO traO
H2866_RS22665 (H2866_22680) 32558..33277 + 720 WP_192504555 conjugal transfer protein TraP traP
H2866_RS22670 (H2866_22685) 33287..33823 + 537 WP_017493165 conjugal transfer protein TraQ traQ
H2866_RS22675 (H2866_22690) 33875..34273 + 399 WP_017493164 DUF6750 family protein traR
H2866_RS22680 (H2866_22695) 34326..34907 + 582 WP_192504556 conjugal transfer protein TraT traT
H2866_RS22685 (H2866_22700) 34917..37967 + 3051 WP_192504557 ATP-binding protein traU
H2866_RS22690 (H2866_22705) 37977..39170 + 1194 WP_192504558 conjugal transfer protein TraW traW
H2866_RS22695 (H2866_22710) 39167..39739 + 573 WP_192504559 conjugal transfer protein TraX -
H2866_RS22700 (H2866_22715) 39768..41906 + 2139 WP_192504560 DotA/TraY family protein traY
H2866_RS22705 (H2866_22720) 41970..42623 + 654 WP_192504561 plasmid IncI1-type surface exclusion protein ExcA -
H2866_RS22710 (H2866_22725) 42738..44258 + 1521 WP_192504562 conjugal transfer protein trbA
H2866_RS22715 (H2866_22730) 44267..44725 + 459 WP_192504563 hypothetical protein trbB
H2866_RS22720 (H2866_22735) 44793..45311 + 519 WP_192504564 thioredoxin fold domain-containing protein trbB
H2866_RS22725 (H2866_22740) 45323..47512 + 2190 WP_341481809 F-type conjugative transfer protein TrbC -
H2866_RS22730 (H2866_22745) 47597..48094 + 498 WP_225741595 phospholipase D family protein -
H2866_RS22735 (H2866_22750) 48106..48246 + 141 WP_192504566 hypothetical protein -
H2866_RS22740 (H2866_22755) 48527..49087 - 561 WP_225741596 LPD7 domain-containing protein -
H2866_RS22745 (H2866_22760) 49463..50275 - 813 WP_192504567 helix-turn-helix domain-containing protein -

Host bacterium

ID   7096 GenBank   NZ_CP060593
Plasmid name   pUnnamed1 Incompatibility group   -
Plasmid size   120691 bp Coordinate of oriT [Strand]   57229..57315 [-]
Host baterium   Rouxiella badensis subsp. acadiensis strain C173

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIB