Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107767
Name   oriT_pGSH0205-8M-1-3 in_silico
Organism   Raoultella ornithinolytica strain GSH0205-8M-1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP019672 (52300..52381 [+], 82 nt)
oriT length   82 nt
IRs (inverted repeats)      27..32, 35..40  (GCCACC..GGTGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 82 nt

>oriT_pGSH0205-8M-1-3
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5215 GenBank   WP_032440569
Name   Relaxase_QMG92_RS28440_pGSH0205-8M-1-3 insolico UniProt ID   A0A7G3L4G1
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74384.24 Da        Isoelectric Point: 8.3203

>WP_032440569.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDERFQRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVICQHNLMSVETAAMEMNSIAMQNTHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSPRSAEMVKQSVQTSYSDKLHVRDRGA
RAERRQARADARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASDNI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGSFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDDRYYD
DVRHNDDSSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB A0A7G3L4G1


T4CP

ID   5464 GenBank   WP_032440593
Name   trbC_QMG92_RS28580_pGSH0205-8M-1-3 insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 82679.78 Da        Isoelectric Point: 6.3201

>WP_032440593.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPNTVQRATQLLSLAAAVLTETRGRYRVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQADGFSY

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(439-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 61490..83423

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QMG92_RS28450 (ROGSH02058M1_p30770) 56637..57131 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
QMG92_RS28455 (ROGSH02058M1_p30780) 57124..58053 - 930 WP_032440581 hypothetical protein -
QMG92_RS28460 (ROGSH02058M1_p30790) 58113..58955 - 843 WP_032440572 helix-turn-helix domain-containing protein -
QMG92_RS28465 (ROGSH02058M1_p30800) 59565..59792 + 228 WP_032440573 hypothetical protein -
QMG92_RS28470 60143..60511 + 369 WP_126523558 hypothetical protein -
QMG92_RS28475 (ROGSH02058M1_p30820) 60524..61003 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
QMG92_RS28480 (ROGSH02058M1_p30830) 61029..61493 + 465 WP_225546581 DotD/TraH family lipoprotein -
QMG92_RS28485 (ROGSH02058M1_p30840) 61490..62308 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
QMG92_RS28490 (ROGSH02058M1_p30850) 62286..63473 + 1188 WP_077255878 plasmid transfer ATPase TraJ -
QMG92_RS28495 (ROGSH02058M1_p30860) 63470..63736 + 267 WP_032440577 IcmT/TraK family protein traK
QMG92_RS28500 (ROGSH02058M1_p30870) 63754..67167 + 3414 WP_052145516 LPD7 domain-containing protein -
QMG92_RS28505 (ROGSH02058M1_p30880) 67201..67554 + 354 WP_032440584 hypothetical protein traL
QMG92_RS28510 (ROGSH02058M1_p30890) 67626..68294 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
QMG92_RS28515 (ROGSH02058M1_p30900) 68305..69408 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
QMG92_RS28520 (ROGSH02058M1_p30910) 69412..70752 + 1341 WP_032440586 conjugal transfer protein TraO traO
QMG92_RS28525 (ROGSH02058M1_p30920) 70759..71478 + 720 WP_050597333 conjugal transfer protein TraP traP
QMG92_RS28530 (ROGSH02058M1_p30930) 71488..72021 + 534 WP_032440587 conjugal transfer protein TraQ traQ
QMG92_RS28535 (ROGSH02058M1_p30940) 72077..72478 + 402 WP_032440588 DUF6750 family protein traR
QMG92_RS28540 (ROGSH02058M1_p30950) 72522..73085 + 564 WP_045325070 hypothetical protein traT
QMG92_RS28545 (ROGSH02058M1_p30960) 73095..76142 + 3048 WP_032440589 conjugal transfer protein traU
QMG92_RS28550 (ROGSH02058M1_p30970) 76152..77348 + 1197 WP_032440590 conjugal transfer protein TraW traW
QMG92_RS28555 (ROGSH02058M1_p30980) 77345..77926 + 582 WP_050597335 conjugal transfer protein TraX -
QMG92_RS28560 (ROGSH02058M1_p30990) 77968..80112 + 2145 WP_032440591 DotA/TraY family protein traY
QMG92_RS28565 (ROGSH02058M1_p31000) 80178..80801 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
QMG92_RS28570 (ROGSH02058M1_p31010) 80903..82321 + 1419 WP_063666705 hypothetical protein trbA
QMG92_RS28575 (ROGSH02058M1_p31020) 82332..83423 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
QMG92_RS28580 (ROGSH02058M1_p31030) 83425..85617 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
QMG92_RS28585 (ROGSH02058M1_p31040) 85663..86196 + 534 WP_032440594 phospholipase D family protein -
QMG92_RS28590 (ROGSH02058M1_p31050) 86208..86459 + 252 WP_113394424 hypothetical protein -

Host bacterium

ID   8202 GenBank   NZ_AP019672
Plasmid name   pGSH0205-8M-1-3 Incompatibility group   IncFII
Plasmid size   86933 bp Coordinate of oriT [Strand]   52300..52381 [+]
Host baterium   Raoultella ornithinolytica strain GSH0205-8M-1

Cargo genes

Drug resistance gene   dfrA14, sul2, aph(3'')-Ib, aph(6)-Id, floR, tet(A), blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -