Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200108
Name   oriT_ICEPmiCHN2416 in_silico
Organism   Proteus mirabilis strain 09MAS2416 sequence
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   KX243407 (3510..3808 [+], 299 nt)
oriT length   299 nt
IRs (inverted repeats)      45..50, 52..57  (CAAACG..CGTTTG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 299 nt

>oriT_ICEPmiCHN2416
GCTCTGTTTGGCGGCGGATGACCTAGTCAAAAAAATCGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGACGATACGTCGTTTTAGGCGTTTTTAAGTGAAATCGGGCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14261 GenBank   APO17034
Name   traI_-_ICEPmiCHN2416 insolico UniProt ID   _
Length   716 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 716 a.a.        Molecular weight: 79650.73 Da        Isoelectric Point: 5.5209

>APO17034.1 Conjugative transfer protein TraI, relaxase [Proteus mirabilis]
MFKNLFFQAKTLPELSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWIRKSNQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLAIKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADLLFSSNVPSGVTLFSKPEWEATQQTQAEPQSRSSEHSDL
PEASSSIEHSNSAESPSSKSSDQDDEIRLASDVNHLQATENAPGDECEKPNNSYDGAIANKVNQHDAEAL
NLSESLAWLPEASSALVVVGEQILIRYPDAVRHWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNAGV
QEQGLLLKGFVSKGLAALIDLSKQDAESVTAIQNKEASPRSSRTETTSAQAKELATRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
RFDEGETVLFTAHAKR

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(39-347)


  Protein structure



No available structure.




T4CP

ID   16508 GenBank   APO17036
Name   traD_-_ICEPmiCHN2416 insolico UniProt ID   _
Length   611 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 611 a.a.        Molecular weight: 67677.58 Da        Isoelectric Point: 6.6443

>APO17036.1 IncF plasmid conjugative transfer protein TraD [Proteus mirabilis]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMALAHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHASYRKNSQMGSTW
IHGIEPKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACI
AAGSPERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTS
QRPDLKTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAAN
TDLEGLLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGL
DSLTDAMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIAT
QTFADFAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTG
NHGERLMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(157-290)

TraM recognition site of TraD and TraG (TraG-D_C)

(456-583)

  Protein structure



No available structure.



ID   16509 GenBank   APO17050
Name   traC_-_ICEPmiCHN2416 insolico UniProt ID   _
Length   799 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 799 a.a.        Molecular weight: 90181.69 Da        Isoelectric Point: 5.9727

>APO17050.1 IncF plasmid conjugative transfer pilus assembly protein TraC [Proteus mirabilis]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLENP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERVWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAESI
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMNLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHDDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(11-241)

TraG P-loop domain (P-loop_TraG)

(436-521)

TraG P-loop domain (P-loop_TraG)

(568-794)

Family of unknown function (DUF5934) (DUF5934)

(253-420)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 33403..61739

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Locus_25 33403..34638 + 1236 APO17033 Bipolar DNA helicase HerA virb4
Locus_26 34802..36952 + 2151 APO17034 Conjugative transfer protein TraI, relaxase -
Locus_27 37078..38181 - 1104 APO17035 putative virulence protein -
Locus_28 38315..40150 + 1836 APO17036 IncF plasmid conjugative transfer protein TraD virb4
Locus_29 40160..40720 + 561 APO17037 Conjugative transfer protein 234 -
Locus_30 40707..41342 + 636 APO17038 Conjugative transfer protein s043 tfc7
Locus_31 41316..41435 - 120 APO17039 hypothetical protein -
Locus_32 41481..42587 + 1107 APO17040 Fic family protein -
Locus_33 42777..43058 + 282 APO17041 IncF plasmid conjugative transfer pilus assembly protein TraL traL
Locus_34 43055..43681 + 627 APO17042 IncF plasmid conjugative transfer pilus assembly protein TraE traE
Locus_35 43665..44561 + 897 APO17043 IncF plasmid conjugative transfer pilus assembly protein TraK traK
Locus_36 44564..45853 + 1290 APO17044 IncF plasmid conjugative transfer pilus assembly protein TraB traB
Locus_37 45928..46500 + 573 APO17045 Conjugative transfer protein TraV traV
Locus_38 46497..46883 + 387 APO17046 Conjugative transfer protein TraA -
Locus_39 46924..47430 - 507 APO17047 Acetyltransferase -
Locus_40 47421..47687 - 267 APO17048 hypothetical protein -
Locus_41 48056..48748 + 693 APO17049 Thiol:disulfide involved in conjugative transfer trbB
Locus_42 48749..51148 + 2400 APO17050 IncF plasmid conjugative transfer pilus assembly protein TraC virb4
Locus_43 51141..51488 + 348 APO17051 Conjugative transfer protein 345 -
Locus_44 51472..51984 + 513 APO17052 Conjugative signal peptidase TrhF -
Locus_45 51995..53119 + 1125 APO17053 IncF plasmid conjugative transfer pilus assembly protein TraW traW
Locus_46 53103..54131 + 1029 APO17054 IncF plasmid conjugative transfer pilus assembly protein TraU traU
Locus_47 54134..57826 + 3693 APO17055 IncF plasmid conjugative transfer protein TraN traN
Locus_48 58285..59703 + 1419 APO17056 hypothetical protein -
Locus_49 59700..61739 + 2040 APO17057 Bipolar DNA helicase HerA virb4
Locus_50 62148..62498 - 351 APO17058 Endonuclease I precursor -
Locus_51 63846..64109 - 264 APO17059 Il-IS_2, transposase -
Locus_52 64131..64643 - 513 APO17060 Lipoprotein signal peptidase -
Locus_53 64647..65543 - 897 APO17061 Cobalt-zinc-cadmium resistance protein CzcD -
Locus_54 65639..66046 + 408 APO17062 Cd(II)/Pb(II)-responsive transcriptional regulator -

Host bacterium

ID   110 Element type   ICE (Integrative and conjugative element)
Element name   ICEPmiCHN2416 GenBank   KX243407
Element size   92556 bp Coordinate of oriT [Strand]   3510..3808 [+]
Host bacterium   Proteus mirabilis strain 09MAS2416 sequence Coordinate of element   1..92556

Cargo genes

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