Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105732
Name   oriT_p4963F in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain NMI4963_19
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MZ750397 (72595..72676 [+], 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_p4963F
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3880 GenBank   WP_015632446
Name   Relaxase_LN400_RS27010_p4963F insolico UniProt ID   R4WBX2
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74631.63 Da        Isoelectric Point: 9.3060

>WP_015632446.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacteriaceae]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDQRFRRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVTCQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNLVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNTMFREKNASWEKLHQVMNDAGLML
EPSGKGLVVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSSRSAEMVKQSVQTPYSDRLHVRDRGA
RAERRQARAEARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIELKAERRKLYDEGRMRPLTYRAWTEQQALHGDQAALSQLRGWAYRQNRKNRTPQASDSI
IFCAPADDTSLIKADGYDARLYRDGAVVYSRHGQDAIIDRGDRVEVINPYDNGDLNTRIAVDMVAWKSGE
RIEFSRDGSFAYAAGDAVAAHNLHHRDSILVPSNREQYDYTREKFNQLKGRYTDREREAVRQQYDNRYYD
DVRHNDDNSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB R4WBX2


T4CP

ID   3895 GenBank   WP_015632442
Name   trbC_LN400_RS27045_p4963F 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: 82688.74 Da        Isoelectric Point: 5.8919

>WP_015632442.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MQQKQKPVDAARLQRQVHQGMVEEMAYRTGPLLLAIIVIFGAAIVWPVLLWVAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLSRHMDNAAGVFYTGYERMLDGGREIWLRMDDLTRHLI
LLATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFIWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTITDPTETAEFAAKSAGMEYQAIQDSMEYRPGAISGSYADTGRVTVQEKSKLPFDELQTLN
QGEQATIFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLAHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPDAVQRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDEFEKYQHIHQSAVTQQADGFVY

  Protein domains


Predicted by InterproScan.

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

(442-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 80537..102378

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LN400_RS27025 75597..76004 + 408 WP_015632445 transposase -
LN400_RS27030 76001..76350 + 350 Protein_92 IS66 family insertion sequence element accessory protein TnpB -
LN400_RS27035 76380..77969 + 1590 WP_015632444 IS66 family transposase -
LN400_RS27040 77992..78297 - 306 WP_015632443 phospholipase D-like domain-containing protein -
LN400_RS27045 78343..80535 - 2193 WP_015632442 F-type conjugative transfer protein TrbC -
LN400_RS27050 80537..81691 - 1155 WP_015632441 thioredoxin fold domain-containing protein trbB
LN400_RS27055 81639..83057 - 1419 WP_015632440 hypothetical protein trbA
LN400_RS27060 83159..83755 - 597 WP_123677147 plasmid IncI1-type surface exclusion protein ExcA -
LN400_RS27065 83848..85992 - 2145 WP_015632438 DotA/TraY family protein traY
LN400_RS27070 86034..86615 - 582 WP_015632437 conjugal transfer protein TraX -
LN400_RS27075 86612..87808 - 1197 WP_015632436 conjugal transfer protein TraW traW
LN400_RS27080 87819..90866 - 3048 WP_015632435 conjugal transfer protein traU
LN400_RS27085 90876..91439 - 564 WP_032495746 hypothetical protein traT
LN400_RS27090 91483..91884 - 402 WP_015632433 DUF6750 family protein traR
LN400_RS27095 91938..92471 - 534 WP_015632432 conjugal transfer protein TraQ traQ
LN400_RS27100 92481..93200 - 720 WP_015632431 conjugal transfer protein TraP traP
LN400_RS27105 93206..94546 - 1341 WP_015632430 conjugal transfer protein TraO traO
LN400_RS27110 94550..95653 - 1104 WP_015632429 DotH/IcmK family type IV secretion protein traN
LN400_RS27115 95664..96368 - 705 WP_015632428 DotI/IcmL/TraM family protein traM
LN400_RS27120 96404..96757 - 354 WP_015632427 hypothetical protein traL
LN400_RS27125 96791..100114 - 3324 WP_032495745 LPD7 domain-containing protein -
LN400_RS27130 100132..100398 - 267 WP_032441926 IcmT/TraK family protein traK
LN400_RS27135 100395..101582 - 1188 WP_032495744 plasmid transfer ATPase TraJ virB11
LN400_RS27140 101560..102378 - 819 WP_015632425 type IV secretory system conjugative DNA transfer family protein traI
LN400_RS27145 102375..102842 - 468 WP_015632424 DotD/TraH family lipoprotein -
LN400_RS27150 102865..103344 - 480 WP_015632423 lytic transglycosylase domain-containing protein -
LN400_RS27155 103357..103962 - 606 WP_015632422 hypothetical protein -
LN400_RS27160 104042..104353 - 312 WP_015632421 hypothetical protein -
LN400_RS27165 104387..104590 - 204 WP_032495743 hypothetical protein -
LN400_RS27170 104608..105075 - 468 WP_032495742 transcription termination/antitermination NusG family protein -
LN400_RS27175 105409..105987 + 579 WP_015632419 hypothetical protein -
LN400_RS27180 105969..106439 + 471 WP_032441927 hypothetical protein -
LN400_RS27185 106439..106825 + 387 WP_015632417 acyl-CoA thioesterase -

Host bacterium

ID   6169 GenBank   NZ_MZ750397
Plasmid name   p4963F Incompatibility group   IncFII
Plasmid size   107304 bp Coordinate of oriT [Strand]   72595..72676 [+]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain NMI4963_19

Cargo genes

Drug resistance gene   blaNDM-1, aac(6')-Ib-cr, blaOXA-1, aac(3)-IIa, blaCTX-M-15, aac(6')-Ib
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -