Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122031
Name   oriT_pCUVET18-1371.3 in_silico
Organism   Serratia nevei strain CUVET18-1371
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP115012 (34363..34444 [+], 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_pCUVET18-1371.3
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13903 GenBank   WP_032440569
Name   traI_O8I25_RS27560_pCUVET18-1371.3 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   16293 GenBank   WP_032440593
Name   trbC_O8I25_RS27695_pCUVET18-1371.3 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: 43553..65486

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O8I25_RS27570 (O8I25_27560) 38700..39194 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
O8I25_RS27575 (O8I25_27565) 39187..40116 - 930 WP_032440581 glycosyltransferase family 9 protein -
O8I25_RS27580 (O8I25_27570) 40176..41018 - 843 WP_032440572 helix-turn-helix domain-containing protein -
O8I25_RS27585 (O8I25_27575) 41628..41855 + 228 WP_032440573 hypothetical protein -
O8I25_RS27590 (O8I25_27580) 42587..43066 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
O8I25_RS27595 (O8I25_27585) 43092..43556 + 465 WP_225546581 DotD/TraH family lipoprotein -
O8I25_RS27600 (O8I25_27590) 43553..44371 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
O8I25_RS27605 (O8I25_27595) 44349..45536 + 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
O8I25_RS27610 (O8I25_27600) 45533..45799 + 267 WP_032440577 IcmT/TraK family protein traK
O8I25_RS27615 (O8I25_27605) 45817..49230 + 3414 WP_052145516 LPD7 domain-containing protein -
O8I25_RS27620 (O8I25_27610) 49264..49617 + 354 WP_032440584 hypothetical protein traL
O8I25_RS27625 (O8I25_27615) 49689..50357 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
O8I25_RS27630 (O8I25_27620) 50368..51471 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
O8I25_RS27635 (O8I25_27625) 51475..52815 + 1341 WP_032440586 conjugal transfer protein TraO traO
O8I25_RS27640 (O8I25_27630) 52822..53541 + 720 WP_050597333 conjugal transfer protein TraP traP
O8I25_RS27645 (O8I25_27635) 53551..54084 + 534 WP_032440587 conjugal transfer protein TraQ traQ
O8I25_RS27650 (O8I25_27640) 54140..54541 + 402 WP_032440588 DUF6750 family protein traR
O8I25_RS27655 (O8I25_27645) 54585..55148 + 564 WP_045325070 hypothetical protein traT
O8I25_RS27660 (O8I25_27650) 55158..58205 + 3048 WP_032440589 conjugal transfer protein traU
O8I25_RS27665 (O8I25_27655) 58215..59411 + 1197 WP_032440590 conjugal transfer protein TraW traW
O8I25_RS27670 (O8I25_27660) 59408..59989 + 582 WP_050597335 conjugal transfer protein TraX -
O8I25_RS27675 (O8I25_27665) 60031..62175 + 2145 WP_032440591 DotA/TraY family protein traY
O8I25_RS27680 (O8I25_27670) 62241..62864 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
O8I25_RS27685 (O8I25_27675) 62966..64384 + 1419 WP_063666705 hypothetical protein trbA
O8I25_RS27690 (O8I25_27680) 64365..65486 + 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
O8I25_RS27695 (O8I25_27685) 65488..67680 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
O8I25_RS27700 (O8I25_27690) 67726..68259 + 534 WP_032440594 phospholipase D family protein -
O8I25_RS27705 (O8I25_27695) 68271..68522 + 252 WP_113394424 hypothetical protein -
O8I25_RS27710 (O8I25_27700) 69097..69723 + 627 WP_254913868 RepA family replication protein -

Host bacterium

ID   22458 GenBank   NZ_CP115012
Plasmid name   pCUVET18-1371.3 Incompatibility group   IncFII
Plasmid size   84227 bp Coordinate of oriT [Strand]   34363..34444 [+]
Host baterium   Serratia nevei strain CUVET18-1371

Cargo genes

Drug resistance gene   qnrS1, aadA2, lnu(F), sul1, qacE, dfrA1, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -