Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115417
Name   oriT_pCEX4 in_silico
Organism   Enterobacter cloacae strain CEX4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LC556220 (28193..28298 [-], 106 nt)
oriT length   106 nt
IRs (inverted repeats)      30..35, 41..46  (CCGCCG..CGGCGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 106 nt

>oriT_pCEX4
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9867 GenBank   WP_050868819
Name   traI_H5B55_RS00125_pCEX4 insolico UniProt ID   A0A142BMF1
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75234.98 Da        Isoelectric Point: 10.0285

>WP_050868819.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPVYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSERDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A142BMF1


T4CP

ID   11504 GenBank   WP_011091092
Name   t4cp2_H5B55_RS00415_pCEX4 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: 79491.81 Da        Isoelectric Point: 4.8270

>WP_011091092.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6294..25397

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H5B55_RS00010 2116..2976 + 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -
H5B55_RS00015 3980..5047 - 1068 WP_050868820 plasmid replication initiator RepA -
H5B55_RS00020 5333..5581 - 249 WP_015062836 IncL/M type plasmid replication protein RepC -
H5B55_RS00025 5638..6291 - 654 WP_011091084 hypothetical protein -
H5B55_RS00030 6294..8474 - 2181 WP_004187492 DotA/TraY family protein traY
H5B55_RS00035 8467..9117 - 651 WP_011091083 hypothetical protein -
H5B55_RS00040 9114..10322 - 1209 WP_011091082 conjugal transfer protein TraW traW
H5B55_RS00045 10319..13369 - 3051 WP_011091081 hypothetical protein traU
H5B55_RS00050 13366..13860 - 495 WP_011091080 hypothetical protein -
H5B55_RS00055 13906..14295 - 390 WP_011091078 DUF6750 family protein traR
H5B55_RS00060 14312..14842 - 531 WP_011091077 conjugal transfer protein TraQ traQ
H5B55_RS00065 14866..15570 - 705 WP_011091076 conjugal transfer protein TraP traP
H5B55_RS00070 15582..16931 - 1350 WP_011091075 conjugal transfer protein TraO traO
H5B55_RS00075 16943..18094 - 1152 WP_011091074 DotH/IcmK family type IV secretion protein traN
H5B55_RS00080 18103..18885 - 783 WP_011091073 DotI/IcmL family type IV secretion protein traM
H5B55_RS00085 18884..19294 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
H5B55_RS00090 19281..19478 + 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
H5B55_RS00095 19479..20033 - 555 WP_011154467 hypothetical protein traL
H5B55_RS00510 19957..23169 - 3213 WP_011091070 LPD7 domain-containing protein -
H5B55_RS00105 23194..23454 - 261 WP_004187310 IcmT/TraK family protein traK
H5B55_RS00110 23444..24607 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
H5B55_RS00115 24618..25397 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
H5B55_RS00120 25394..25894 - 501 WP_004187320 DotD/TraH family lipoprotein -
H5B55_RS00125 25908..27887 - 1980 WP_050868819 TraI/MobA(P) family conjugative relaxase -
H5B55_RS00515 27874..28452 - 579 WP_223811519 plasmid mobilization protein MobA -
H5B55_RS00135 28467..28832 + 366 WP_011091067 hypothetical protein -
H5B55_RS00140 29333..29869 - 537 WP_011091066 hypothetical protein -
H5B55_RS00145 30002..30313 - 312 WP_011091065 hypothetical protein -

Host bacterium

ID   15850 GenBank   NZ_LC556220
Plasmid name   pCEX4 Incompatibility group   IncL/M
Plasmid size   80989 bp Coordinate of oriT [Strand]   28193..28298 [-]
Host baterium   Enterobacter cloacae strain CEX4

Cargo genes

Drug resistance gene   blaTEM-1B, blaCTX-M-3, sul1, qacE, aadA2, dfrA12, aac(3)-IId
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -