Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101250
Name   oriT_pIncL-M in_silico
Organism   Klebsiella pneumoniae strain D3-2b-17
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NNCC01000032 (32865..32970 [-], 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_pIncL-M
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1218 GenBank   WP_004187323
Name   traI_CG021_RS26165_pIncL-M insolico UniProt ID   A0A3U8KUL3
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75179.89 Da        Isoelectric Point: 9.9948

>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U8KUL3


T4CP

ID   829 GenBank   WP_004206885
Name   t4cp2_CG021_RS26050_pIncL-M 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: 2726..30069

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CG021_RS26015 (CG021_26030) 1..112 + 112 WP_001691633 IS1 family transposase -
CG021_RS26020 (CG021_26035) 109..1314 + 1206 WP_025987686 IS4-like element IS10A family transposase -
CG021_RS26025 (CG021_26040) 1329..1763 - 435 Protein_2 CPBP family intramembrane glutamate endopeptidase -
CG021_RS26030 (CG021_26045) 1843..2226 + 384 WP_019725042 DUF1496 domain-containing protein -
CG021_RS26035 (CG021_26050) 2331..2726 + 396 WP_004187436 lytic transglycosylase domain-containing protein -
CG021_RS26040 (CG021_26055) 2726..4033 + 1308 WP_015059988 hypothetical protein trbA
CG021_RS26045 (CG021_26060) 4044..4994 + 951 WP_004206886 DsbC family protein trbB
CG021_RS26050 (CG021_26065) 5007..7094 + 2088 WP_004206885 conjugal transfer protein TrbC -
CG021_RS31990 7145..7240 - 96 WP_004206884 DinQ-like type I toxin DqlB -
CG021_RS26055 (CG021_26070) 8463..9518 - 1056 WP_015060006 plasmid replication initiator RepA -
CG021_RS26060 (CG021_26075) 9814..10056 - 243 WP_023893611 IncL/M type plasmid replication protein RepC -
CG021_RS26065 (CG021_26080) 10125..10778 - 654 WP_015060005 hypothetical protein -
CG021_RS26070 (CG021_26085) 10780..12975 - 2196 WP_015062834 DotA/TraY family protein traY
CG021_RS26075 (CG021_26090) 12968..13564 - 597 WP_015060003 hypothetical protein -
CG021_RS26080 (CG021_26095) 13561..14769 - 1209 WP_011091082 conjugal transfer protein TraW traW
CG021_RS26085 (CG021_26100) 14766..17816 - 3051 WP_004187482 hypothetical protein traU
CG021_RS26090 (CG021_26105) 17813..18307 - 495 WP_004187480 hypothetical protein -
CG021_RS26095 (CG021_26110) 18353..18742 - 390 WP_004187479 DUF6750 family protein traR
CG021_RS26100 (CG021_26115) 18759..19289 - 531 WP_004187478 conjugal transfer protein TraQ traQ
CG021_RS26105 (CG021_26120) 19313..20017 - 705 WP_015060002 conjugal transfer protein TraP traP
CG021_RS26110 (CG021_26125) 20029..21378 - 1350 WP_004187474 conjugal transfer protein TraO traO
CG021_RS26115 (CG021_26130) 21390..22541 - 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
CG021_RS26120 (CG021_26135) 22550..23263 - 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
CG021_RS26125 (CG021_26140) 23331..23741 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
CG021_RS26130 (CG021_26145) 23728..23925 + 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
CG021_RS26135 (CG021_26150) 23926..24438 - 513 WP_011091071 hypothetical protein traL
CG021_RS31690 24404..27841 - 3438 WP_015586048 LPD7 domain-containing protein -
CG021_RS26145 (CG021_26160) 27866..28126 - 261 WP_004187310 IcmT/TraK family protein traK
CG021_RS26150 (CG021_26165) 28116..29279 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
CG021_RS26155 (CG021_26170) 29290..30069 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
CG021_RS26160 (CG021_26175) 30066..30566 - 501 WP_004187320 DotD/TraH family lipoprotein -
CG021_RS26165 (CG021_26180) 30580..32559 - 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
CG021_RS31695 32546..33073 - 528 WP_172740549 plasmid mobilization protein MobA -
CG021_RS26175 (CG021_26190) 33108..33503 + 396 WP_019725163 hypothetical protein -
CG021_RS26180 (CG021_26195) 34005..34541 - 537 WP_004187332 hypothetical protein -
CG021_RS26185 (CG021_26200) 34674..34985 - 312 WP_004187333 hypothetical protein -

Host bacterium

ID   1694 GenBank   NZ_NNCC01000032
Plasmid name   pIncL-M Incompatibility group   IncL/M
Plasmid size   41987 bp Coordinate of oriT [Strand]   32865..32970 [-]
Host baterium   Klebsiella pneumoniae strain D3-2b-17

Cargo genes

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