Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121499
Name   oriT_SRS16|3 in_silico
Organism   Variovorax sp. SRS16
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR594668 (490967..491068 [-], 102 nt)
oriT length   102 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 102 nt

>oriT_SRS16|3
GCCTCGCAGAGCAAGAGCCCTGTTGAGCACGTAGTGCGAATAAAGGGCAAGGCGAAGTAGCTCTGCCGCTTGCGGTAGGGGTACTTCGCCTATCTTGCCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13554 GenBank   WP_162571560
Name   traI_E5P2_RS34600_SRS16|3 insolico UniProt ID   _
Length   754 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 754 a.a.        Molecular weight: 83472.18 Da        Isoelectric Point: 11.1416

>WP_162571560.1 TraI/MobA(P) family conjugative relaxase [Variovorax sp. SRS16]
MIVRRVAMKDPKKSSFAGLSRYITDSQGKAERLGEVRLTNFASDAVDWAVREAEALQAHNTRAQSDKTYH
LLISFAPGESPAPEALRVIEDRICTALGYQEHQRISAVHRDTDCLHIHVAINKIHPKRHTIHEPLRDFKL
MGEAAAKLEVEFGLQRLDHAGRKSQSENRADDLERHSGVQSLLAWIKAECLGEFRCAKSWHELHATMRSA
GLALRLQGNGLVIEDDKGCSVKASSVAREMSKAQLEKKLGPFTPSSDKGAQIRQPAKRYEAKPIRSRLDT
SRLYEAYKAEQDAMAVTRSEATRLERSRYTQEVEAAKRAGRLRRATIKLMGDSPANKRLLYLLSSRKLKD
DLQKARNHNVLARQRIANENTQRAWADWLRLKAANGHKDALEALRAREASRGLRGNTVAGEGIRNGPETR
MLVQDSVTKQGTVIYRAVGNATVRDDGKRIQLESGSRASAMAQALRLAAHRYGTRISLTGTADFKELAVR
AAAAARLPITFADAALEQRRIALIQFLNQRERNDERTQRQRQRRPGTGDGRAGRSAPPRERSTRGFRGAL
GELMATGAYWLGSPSRIGKPNIGRAGTRPPPTNQKRLRNLHQLAVVRIASGSEVLLPRDVPDHVEQRHPG
PDHHVRRPVDRPGVAVGAPKSTSATAAVDMFVAERDSKRLKGIDIPKYIRYTDDFGAAALYAGTRRSAGA
TLALVKRGDVVAVLEIDAATARRLKRIKVGDPVSLTPDGAIRIKGIKAIKGRSR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)

Large polyvalent protein-associated domain 7 (LPD7)

(423-511)


  Protein structure



No available structure.




T4CP

ID   15841 GenBank   WP_162571561
Name   t4cp2_E5P2_RS34605_SRS16|3 insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 69804.78 Da        Isoelectric Point: 8.8861

>WP_162571561.1 type IV secretory system conjugative DNA transfer family protein [Variovorax sp. SRS16]
MTDKRNNAVGPQIRGKRERPSRGIPLLAGGTLLAALGASSQYFAHTFQYNPQLGSSLGHVYAPWSIIGWA
MRWYGIYPDAVTRAGGIGISIAAAGLLALSITRMALANSSKPNQYLHGSARWANEEDIRKAGLLPRKEPL
LDRLRGLAPVRNDGVYVGAWVDDAGVMHYLRHAGPEHVLCYAPTRSGKGVGLVVPTLLSWSGSTIITDLK
GELWALTSGWRQKHAKNKVLRFEPAAADGSVRWNPLDELRIGTEHEVGDVQNLATLIVDPDGKGLESHWQ
KTAQALLVGLILHSLYKARDEGTTATLPAIDAMVSDPSRNAAEVWMEMATYGHIDGTNHPVVGAAARDML
DRPDEEGGSVLSTTKSYLSLYRDPVVARNVGASQFQIRDLMHADSPVSLYIVTQPNDKARLRPLVRVLVN
MAFRLLADKMSFESGRPVAHYKHRLLFMADEFPSLGKLEIIQESLAFVAGYGIKCYLICQDLNQLKSRET
GYGPDETVTSNCHVQNAYPPNRLETAEHLSKLTGQTTIVKEQVTTSGRRMSAMLSQVSRTTQEVQRPLLT
VDECLRMPGPVKGFQDGRDVIKAPGDMVVYVAGFPAIYGQQPLYFMNGTFQARAQVPAPTNSDVIRNIGT
PAAEAGVTI

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(121-621)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 528761..547691

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
E5P2_RS34735 (G3W92_RS34715) 524157..524600 + 444 WP_162571587 hypothetical protein -
E5P2_RS34740 (G3W92_RS34720) 524647..525216 - 570 WP_162571588 hypothetical protein -
E5P2_RS34745 (G3W92_RS34725) 525295..526956 - 1662 WP_162571589 hypothetical protein -
E5P2_RS34750 (G3W92_RS34730) 526980..527558 - 579 WP_162571590 type 4 pilus major pilin -
E5P2_RS34755 (G3W92_RS34735) 527633..528757 - 1125 WP_162571591 hypothetical protein -
E5P2_RS34760 (G3W92_RS34740) 528761..530479 - 1719 WP_162571592 GspE/PulE family protein virB11
E5P2_RS34765 (G3W92_RS34745) 530479..530949 - 471 WP_162571593 hypothetical protein -
E5P2_RS34770 (G3W92_RS34750) 530966..532297 - 1332 WP_162571594 type 4b pilus protein PilO2 -
E5P2_RS34775 (G3W92_RS34755) 532306..534195 - 1890 WP_162571595 hypothetical protein -
E5P2_RS34780 (G3W92_RS34760) 534192..535076 - 885 WP_162571596 toxin co-regulated pilus biosynthesis Q family protein -
E5P2_RS34785 (G3W92_RS34765) 535098..535616 - 519 WP_162571597 lytic transglycosylase domain-containing protein virB1
E5P2_RS34790 (G3W92_RS34770) 535746..536486 - 741 WP_162571598 TraX family protein -
E5P2_RS34795 (G3W92_RS34775) 536483..537103 - 621 WP_162571599 TrbM/KikA/MpfK family conjugal transfer protein -
E5P2_RS34800 (G3W92_RS34780) 537111..538706 - 1596 WP_162571600 P-type conjugative transfer protein TrbL virB6
E5P2_RS34805 (G3W92_RS34785) 538700..538936 - 237 WP_232081006 entry exclusion lipoprotein TrbK -
E5P2_RS34810 (G3W92_RS34790) 538933..539706 - 774 WP_269475718 P-type conjugative transfer protein TrbJ virB5
E5P2_RS34815 (G3W92_RS34795) 539706..541097 - 1392 WP_162571601 TrbI/VirB10 family protein virB10
E5P2_RS34820 (G3W92_RS34800) 541100..541573 - 474 WP_162571602 conjugal transfer protein TrbH -
E5P2_RS34825 (G3W92_RS34805) 541570..542373 - 804 Protein_545 P-type conjugative transfer protein TrbG -
E5P2_RS34830 (G3W92_RS34810) 542723..543391 - 669 WP_232081007 conjugal transfer protein TrbF virB8
E5P2_RS34835 (G3W92_RS34815) 543448..546009 - 2562 WP_162571604 VirB4 family type IV secretion/conjugal transfer ATPase virb4
E5P2_RS34840 (G3W92_RS34820) 546006..546317 - 312 WP_162571605 conjugal transfer protein TrbD virB3
E5P2_RS34845 (G3W92_RS34825) 546321..546695 - 375 WP_162571657 TrbC/VirB2 family protein virB2
E5P2_RS34850 (G3W92_RS34830) 546732..547691 - 960 WP_269475719 P-type conjugative transfer ATPase TrbB virB11
E5P2_RS34855 (G3W92_RS34835) 547871..548233 - 363 WP_162571606 transcriptional regulator -
E5P2_RS34860 (G3W92_RS34840) 548483..549100 + 618 WP_162571607 AbiEi antitoxin N-terminal domain-containing protein -
E5P2_RS34865 (G3W92_RS34845) 549097..549942 + 846 WP_162571608 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
E5P2_RS34870 (G3W92_RS34850) 550238..551269 + 1032 WP_162571609 site-specific integrase -
E5P2_RS34875 (SRS16P2_00547) 551612..552157 + 546 WP_197908655 H-NS family nucleoid-associated regulatory protein -

Host bacterium

ID   21926 GenBank   NZ_LR594668
Plasmid name   SRS16|3 Incompatibility group   -
Plasmid size   560632 bp Coordinate of oriT [Strand]   490967..491068 [-]
Host baterium   Variovorax sp. SRS16

Cargo genes

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