Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118415
Name   oriT_pIT-Cfr-01/2015 in_silico
Organism   Citrobacter freundii strain IT-Cfr-01/2015
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH722216 (55884..55989 [+], 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_pIT-Cfr-01/2015
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure



Relaxase

ID   11698 GenBank   WP_015058937
Name   traI_IST21_RS00400_pIT-Cfr-01/2015 insolico UniProt ID   A0A7G3L766
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75223.04 Da        Isoelectric Point: 9.9948

>WP_015058937.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETVLAVKSDMFEGLNNYLIRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQNTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNLPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(87-334)

Large polyvalent protein-associated domain 7 (LPD7)

(530-630)


  Protein structure


Source ID Structure
AlphaFold DB A0A7G3L766


T4CP

ID   13697 GenBank   WP_011091092
Name   t4cp2_IST21_RS00120_pIT-Cfr-01/2015 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: 58785..78203

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IST21_RS00380 53870..54181 + 312 WP_015058934 hypothetical protein -
IST21_RS00385 54314..54850 + 537 WP_015058935 hypothetical protein -
IST21_RS00390 55351..55746 - 396 WP_015058936 hypothetical protein -
IST21_RS00510 55745..56308 + 564 WP_227537722 plasmid mobilization protein MobA -
IST21_RS00400 56295..58274 + 1980 WP_015058937 TraI/MobA(P) family conjugative relaxase -
IST21_RS00405 58288..58788 + 501 WP_004187320 DotD/TraH family lipoprotein -
IST21_RS00410 58785..59564 + 780 WP_015058938 type IV secretory system conjugative DNA transfer family protein traI
IST21_RS00415 59575..60738 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
IST21_RS00420 60728..60988 + 261 WP_004187310 IcmT/TraK family protein traK
IST21_RS00515 61013..64540 + 3528 WP_015058939 LPD7 domain-containing protein -
IST21_RS00430 64464..65018 + 555 WP_015243643 hypothetical protein traL
IST21_RS00435 65019..65216 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
IST21_RS00440 65203..65613 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
IST21_RS00445 65612..66394 + 783 WP_015058941 DotI/IcmL family type IV secretion protein traM
IST21_RS00450 66403..67554 + 1152 WP_011091074 DotH/IcmK family type IV secretion protein traN
IST21_RS00455 67566..68915 + 1350 WP_015058942 conjugal transfer protein TraO traO
IST21_RS00460 68927..69631 + 705 WP_015243644 conjugal transfer protein TraP traP
IST21_RS00465 69655..70185 + 531 WP_011091077 conjugal transfer protein TraQ traQ
IST21_RS00470 70202..70591 + 390 WP_011091078 DUF6750 family protein traR
IST21_RS00475 70637..71131 + 495 WP_015243645 hypothetical protein -
IST21_RS00480 71128..74178 + 3051 WP_011091081 hypothetical protein traU
IST21_RS00485 74175..75383 + 1209 WP_011091082 conjugal transfer protein TraW traW
IST21_RS00490 75380..76030 + 651 WP_011091083 hypothetical protein -
IST21_RS00495 76023..78203 + 2181 WP_004187492 DotA/TraY family protein traY
IST21_RS00500 78206..78859 + 654 WP_011091084 hypothetical protein -

Host bacterium

ID   18848 GenBank   NZ_MH722216
Plasmid name   pIT-Cfr-01/2015 Incompatibility group   IncL/M
Plasmid size   78923 bp Coordinate of oriT [Strand]   55884..55989 [+]
Host baterium   Citrobacter freundii strain IT-Cfr-01/2015

Cargo genes

Drug resistance gene   blaTEM-1B, aac(3)-IId, blaNDM-1, sul1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -