Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118788
Name   oriT_pWP8-W19-CRE-01_3 in_silico
Organism   Raoultella ornithinolytica strain WP8-W19-CRE-01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022271 (6076..6157 [+], 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_pWP8-W19-CRE-01_3
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11918 GenBank   WP_032440569
Name   traI_H7R88_RS28020_pWP8-W19-CRE-01_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   13947 GenBank   WP_032440593
Name   trbC_H7R88_RS28160_pWP8-W19-CRE-01_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: 15266..37199

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R88_RS28030 (WP8W19C01_P30170) 10413..10907 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
H7R88_RS28035 (WP8W19C01_P30180) 10900..11829 - 930 WP_032440581 glycosyltransferase family 9 protein -
H7R88_RS28040 (WP8W19C01_P30190) 11889..12731 - 843 WP_032440572 helix-turn-helix domain-containing protein -
H7R88_RS28045 (WP8W19C01_P30200) 13341..13568 + 228 WP_032440573 hypothetical protein -
H7R88_RS28050 13919..14287 + 369 WP_126523558 hypothetical protein -
H7R88_RS28055 (WP8W19C01_P30220) 14300..14779 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
H7R88_RS28060 (WP8W19C01_P30230) 14805..15269 + 465 WP_225546581 DotD/TraH family lipoprotein -
H7R88_RS28065 (WP8W19C01_P30240) 15266..16084 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
H7R88_RS28070 (WP8W19C01_P30250) 16062..17249 + 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
H7R88_RS28075 (WP8W19C01_P30260) 17246..17512 + 267 WP_032440577 IcmT/TraK family protein traK
H7R88_RS28080 (WP8W19C01_P30270) 17530..20943 + 3414 WP_052145516 LPD7 domain-containing protein -
H7R88_RS28085 (WP8W19C01_P30280) 20977..21330 + 354 WP_032440584 hypothetical protein traL
H7R88_RS28090 (WP8W19C01_P30290) 21402..22070 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
H7R88_RS28095 (WP8W19C01_P30300) 22081..23184 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
H7R88_RS28100 (WP8W19C01_P30310) 23188..24528 + 1341 WP_032440586 conjugal transfer protein TraO traO
H7R88_RS28105 (WP8W19C01_P30320) 24535..25254 + 720 WP_050597333 conjugal transfer protein TraP traP
H7R88_RS28110 (WP8W19C01_P30330) 25264..25797 + 534 WP_032440587 conjugal transfer protein TraQ traQ
H7R88_RS28115 (WP8W19C01_P30340) 25853..26254 + 402 WP_032440588 DUF6750 family protein traR
H7R88_RS28120 (WP8W19C01_P30350) 26298..26861 + 564 WP_045325070 hypothetical protein traT
H7R88_RS28125 (WP8W19C01_P30360) 26871..29918 + 3048 WP_032440589 conjugal transfer protein traU
H7R88_RS28130 (WP8W19C01_P30370) 29928..31124 + 1197 WP_032440590 conjugal transfer protein TraW traW
H7R88_RS28135 (WP8W19C01_P30380) 31121..31702 + 582 WP_050597335 conjugal transfer protein TraX -
H7R88_RS28140 (WP8W19C01_P30390) 31744..33888 + 2145 WP_032440591 DotA/TraY family protein traY
H7R88_RS28145 (WP8W19C01_P30400) 33954..34577 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
H7R88_RS28150 (WP8W19C01_P30410) 34679..36097 + 1419 WP_063666705 hypothetical protein trbA
H7R88_RS28155 (WP8W19C01_P30420) 36108..37199 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
H7R88_RS28160 (WP8W19C01_P30430) 37201..39393 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
H7R88_RS28165 (WP8W19C01_P30440) 39439..39972 + 534 WP_032440594 phospholipase D family protein -
H7R88_RS28170 (WP8W19C01_P30450) 39984..40235 + 252 WP_113394424 hypothetical protein -
H7R88_RS28175 (WP8W19C01_P30460) 40741..41436 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   19220 GenBank   NZ_AP022271
Plasmid name   pWP8-W19-CRE-01_3 Incompatibility group   IncFII
Plasmid size   86933 bp Coordinate of oriT [Strand]   6076..6157 [+]
Host baterium   Raoultella ornithinolytica strain WP8-W19-CRE-01

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   -