Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101851
Name   oriT_pDCCK-1 in_silico
Organism   Enterobacter hormaechei strain HA2Ehor
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAMQJX010000016 (44080..44184 [+], 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_pDCCK-1
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1529 GenBank   WP_004206924
Name   Relaxase_NDQ77_RS21000_pDCCK-1 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   1203 GenBank   WP_004206885
Name   t4cp2_NDQ77_RS20745_pDCCK-1 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: 46982..66178

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NDQ77_RS20980 (NDQ77_20980) 42066..42377 + 312 WP_004187333 hypothetical protein -
NDQ77_RS20985 (NDQ77_20985) 42510..43046 + 537 WP_004206920 hypothetical protein -
NDQ77_RS20990 (NDQ77_20990) 43547..43912 - 366 WP_058672219 hypothetical protein -
NDQ77_RS20995 (NDQ77_20995) 44188..44505 + 318 WP_004206923 plasmid mobilization protein MobA -
NDQ77_RS21000 (NDQ77_21000) 44492..46471 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
NDQ77_RS21005 (NDQ77_21005) 46485..46985 + 501 WP_004206925 DotD/TraH family lipoprotein -
NDQ77_RS21010 (NDQ77_21010) 46982..47761 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
NDQ77_RS21015 (NDQ77_21015) 47772..48935 + 1164 WP_004206926 plasmid transfer ATPase TraJ virB11
NDQ77_RS21020 (NDQ77_21020) 48925..49185 + 261 WP_004187310 IcmT/TraK family protein traK
NDQ77_RS21025 (NDQ77_21025) 49210..52515 + 3306 WP_242781107 LPD7 domain-containing protein -
NDQ77_RS21030 (NDQ77_21030) 52481..52993 + 513 WP_011091071 hypothetical protein traL
NDQ77_RS21035 (NDQ77_21035) 52994..53206 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
NDQ77_RS21040 (NDQ77_21040) 53178..53588 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
NDQ77_RS21045 (NDQ77_21045) 53656..54369 + 714 WP_223294958 DotI/IcmL family type IV secretion protein traM
NDQ77_RS21050 (NDQ77_21050) 54378..55529 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
NDQ77_RS21055 (NDQ77_21055) 55541..56890 + 1350 WP_004206932 conjugal transfer protein TraO traO
NDQ77_RS21060 (NDQ77_21060) 56902..57606 + 705 WP_004206933 conjugal transfer protein TraP traP
NDQ77_RS21065 (NDQ77_21065) 57630..58160 + 531 WP_004187478 conjugal transfer protein TraQ traQ
NDQ77_RS21070 (NDQ77_21070) 58177..58566 + 390 WP_011154472 DUF6750 family protein traR
NDQ77_RS21075 (NDQ77_21075) 58612..59106 + 495 WP_004187480 hypothetical protein -
NDQ77_RS21080 (NDQ77_21080) 59103..62153 + 3051 WP_011154474 conjugative transfer protein traU
NDQ77_RS21085 (NDQ77_21085) 62150..63358 + 1209 WP_004187486 conjugal transfer protein TraW traW
NDQ77_RS21090 (NDQ77_21090) 63355..64005 + 651 WP_004187488 hypothetical protein -
NDQ77_RS21095 (NDQ77_21095) 63998..66178 + 2181 WP_004187492 DotA/TraY family protein traY
NDQ77_RS21100 (NDQ77_21100) 66181..66834 + 654 WP_004206935 hypothetical protein -
NDQ77_RS21105 (NDQ77_21105) 66908..67138 + 231 WP_004187496 IncL/M type plasmid replication protein RepC -
NDQ77_RS21110 (NDQ77_21110) 67435..68490 + 1056 WP_230206039 plasmid replication initiator RepA -
NDQ77_RS21115 (NDQ77_21115) 69382..69837 - 456 WP_001166628 Hg(II)-responsive transcriptional regulator -
NDQ77_RS21120 (NDQ77_21120) 69909..70259 + 351 WP_031623830 mercuric ion transporter MerT -
NDQ77_RS21125 (NDQ77_21125) 70275..70550 + 276 WP_000732275 mercury resistance system periplasmic binding protein MerP -
NDQ77_RS21130 (NDQ77_21130) 70578..70766 + 189 Protein_90 MerC family mercury resistance protein -

Host bacterium

ID   2295 GenBank   NZ_JAMQJX010000016
Plasmid name   pDCCK-1 Incompatibility group   IncL/M
Plasmid size   76978 bp Coordinate of oriT [Strand]   44080..44184 [+]
Host baterium   Enterobacter hormaechei strain HA2Ehor

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   merR, merT, merP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -