Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120107
Name   oriT_pPOL1-B in_silico
Organism   Enterobacter roggenkampii strain POL1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP086407 (19262..19366 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      32..37, 40..45  (GCCGGC..GCCGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT_pPOL1-B
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12665 GenBank   WP_004206924
Name   traI_LMJ44_RS23550_pPOL1-B insolico UniProt ID   A0A2V4FJ40
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75087.84 Da        Isoelectric Point: 10.0285

>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A2V4FJ40


T4CP

ID   14867 GenBank   WP_004206885
Name   t4cp2_LMJ44_RS23665_pPOL1-B insolico UniProt ID   _
Length   695 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 695 a.a.        Molecular weight: 79538.91 Da        Isoelectric Point: 4.8317

>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 22164..49413

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LMJ44_RS23530 (LMJ44_23535) 17248..17559 + 312 WP_004187333 hypothetical protein -
LMJ44_RS23535 (LMJ44_23540) 17692..18228 + 537 WP_004206920 hypothetical protein -
LMJ44_RS23540 (LMJ44_23545) 18729..19094 - 366 WP_004206922 hypothetical protein -
LMJ44_RS23545 (LMJ44_23550) 19370..19687 + 318 WP_004206923 plasmid mobilization protein MobA -
LMJ44_RS23550 (LMJ44_23555) 19674..21653 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
LMJ44_RS23555 (LMJ44_23560) 21667..22167 + 501 WP_004206925 DotD/TraH family lipoprotein -
LMJ44_RS23560 (LMJ44_23565) 22164..22943 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
LMJ44_RS23565 (LMJ44_23570) 22954..24117 + 1164 WP_004206926 plasmid transfer ATPase TraJ virB11
LMJ44_RS23570 (LMJ44_23575) 24107..24367 + 261 WP_004187310 IcmT/TraK family protein traK
LMJ44_RS23575 (LMJ44_23580) 24392..27697 + 3306 WP_219818010 LPD7 domain-containing protein -
LMJ44_RS23580 (LMJ44_23585) 27663..28175 + 513 WP_011091071 hypothetical protein traL
LMJ44_RS23585 (LMJ44_23590) 28176..28388 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
LMJ44_RS23590 (LMJ44_23595) 28360..28770 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
LMJ44_RS23595 (LMJ44_23600) 28838..29551 + 714 WP_223294958 DotI/IcmL family type IV secretion protein traM
LMJ44_RS23600 (LMJ44_23605) 29560..30711 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
LMJ44_RS23605 (LMJ44_23610) 30723..32072 + 1350 WP_004206932 conjugal transfer protein TraO traO
LMJ44_RS23610 (LMJ44_23615) 32084..32788 + 705 WP_004206933 conjugal transfer protein TraP traP
LMJ44_RS23615 (LMJ44_23620) 32812..33342 + 531 WP_004187478 conjugal transfer protein TraQ traQ
LMJ44_RS23620 (LMJ44_23625) 33359..33748 + 390 WP_011154472 DUF6750 family protein traR
LMJ44_RS23625 (LMJ44_23630) 33794..34288 + 495 WP_004187480 hypothetical protein -
LMJ44_RS23630 (LMJ44_23635) 34285..37335 + 3051 WP_011154474 conjugative transfer protein traU
LMJ44_RS23635 (LMJ44_23640) 37332..38540 + 1209 WP_004187486 conjugal transfer protein TraW traW
LMJ44_RS23640 (LMJ44_23645) 38537..39187 + 651 WP_004187488 hypothetical protein -
LMJ44_RS23645 (LMJ44_23650) 39180..41360 + 2181 WP_004187492 DotA/TraY family protein traY
LMJ44_RS23650 (LMJ44_23655) 41363..42016 + 654 WP_004206935 hypothetical protein -
LMJ44_RS23655 (LMJ44_23660) 42090..42320 + 231 WP_004187496 IncL/M type plasmid replication protein RepC -
LMJ44_RS23660 (LMJ44_23665) 42617..43672 + 1056 WP_021526650 plasmid replication initiator RepA -
LMJ44_RS23950 44899..44994 + 96 WP_004206884 DinQ-like type I toxin DqlB -
LMJ44_RS23665 (LMJ44_23670) 45045..47132 - 2088 WP_004206885 conjugal transfer protein TrbC -
LMJ44_RS23670 (LMJ44_23675) 47145..48095 - 951 WP_004206886 DsbC family protein trbB
LMJ44_RS23675 (LMJ44_23680) 48106..49413 - 1308 WP_015059988 hypothetical protein trbA
LMJ44_RS23680 (LMJ44_23685) 49413..49808 - 396 WP_004187436 lytic transglycosylase domain-containing protein -
LMJ44_RS23685 (LMJ44_23690) 49913..50296 - 384 WP_004206889 DUF1496 domain-containing protein -
LMJ44_RS23690 (LMJ44_23695) 50376..51029 + 654 WP_004206890 CPBP family intramembrane glutamic endopeptidase -
LMJ44_RS23695 (LMJ44_23700) 51121..51378 + 258 WP_004187429 type II toxin-antitoxin system antitoxin PemI -
LMJ44_RS23700 (LMJ44_23705) 51347..51712 + 366 WP_020277900 type II toxin-antitoxin system toxin endoribonuclease PemK-mt -
LMJ44_RS23705 (LMJ44_23710) 51805..52239 + 435 WP_044068898 LexA family transcriptional regulator -
LMJ44_RS23710 (LMJ44_23715) 52227..53492 + 1266 WP_024190314 translesion error-prone DNA polymerase V subunit UmuC -
LMJ44_RS23715 (LMJ44_23720) 53615..53824 - 210 WP_004187413 hypothetical protein -
LMJ44_RS23720 (LMJ44_23725) 53827..54045 - 219 WP_004187411 hypothetical protein -

Host bacterium

ID   20537 GenBank   NZ_CP086407
Plasmid name   pPOL1-B Incompatibility group   IncL/M
Plasmid size   79100 bp Coordinate of oriT [Strand]   19262..19366 [+]
Host baterium   Enterobacter roggenkampii strain POL1

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -