Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121230
Name   oriT_pKF707 in_silico
Organism   Pseudomonas furukawaii strain KF707
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP014863 (37354..37459 [+], 106 nt)
oriT length   106 nt
IRs (inverted repeats)      64..72, 75..83  (CCACCTCGC..GCGAGGTGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 106 nt

>oriT_pKF707
CACCCTCGGAGAGCAGGACCCCCGTTGAGCACGTAGTGCGAATAAGGGGATGGTGAAATGGGTCCACCTCGCTTGCGAGGTGGGCCCACTTCACACATCCTGCCCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13409 GenBank   WP_003454285
Name   traI_KF707C_RS28780_pKF707 insolico UniProt ID   _
Length   616 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 616 a.a.        Molecular weight: 67989.91 Da        Isoelectric Point: 10.2213

>WP_003454285.1 TraI/MobA(P) family conjugative relaxase [Pseudomonas furukawaii]
MIAKRVPRRRDGKSSFGSLVKYLQDDQGKLERVGDVSVTNCGSEDPQWAVREIEAVQDLNRRAKSDKTYH
LVFSFREGEDISPEVLKEIEGELCKGLGYADHQRISVVHRDTDNLHVHVAINKIHPQTHNMIEPYYDHKR
LGELCSRIELTYGLERDNHAPSKSAASSKADDLAAKSELETLAGWIRSEALEGISKVGSWQELHGHLAEH
GLQIRKKGAGLVFETEDGISVRASSVDRACSLKTLEGRLGSYEESAQRASSIAKKTYRPRPRRSSVDSSH
LYARYQKERDAVTTGKRKGLGQLKSEKDRALQAVLEAGKKKRAATKLLKGLGAGAISRRLLYAQIASSQR
DDLKKVHEEFARRRKELHEKKPQLSFRDWVAAAAAKGDQEALAYLRSKTISGLRGNTVAAKQSTAAGPIA
GLQVDGVSQAGTITYKAPGGVIRDDGNRLQLRKEASDETVLLALELAAKRHGNRLTISGDDFFKAKVAHV
AARHSLPVVFDDPTIEKARKAAESLGFEQGRAAVSYIDERNEKHARGFDIMKHRQFASTDAGPLEFAGLR
NVEGQQLALLKRGQEMLVLPVNAATAARLQRQRVGREIHVSAVGAIQVQGSTRSRE

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-250)

Large polyvalent protein-associated domain 7 (LPD7)

(430-512)


  Protein structure



No available structure.




T4CP

ID   15710 GenBank   WP_003451637
Name   t4cp2_KF707C_RS28700_pKF707 insolico UniProt ID   _
Length   822 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 822 a.a.        Molecular weight: 91403.62 Da        Isoelectric Point: 6.1863

>WP_003451637.1 Conjugative transfer protein TrbE [Pseudomonas furukawaii]
MSLLLPRPSSIKPFRSRKPGFSDLLQYAAMPEDGVVTLKYGAYLVSWIYQGEDNASATDTQREIVSAVIN
RELLKLGSGWMLHTDAIRRPAPKYADEGASAFPDPVTKAIDQERRQTFERLGAMYEGAFIMSVTYQPPLA
LETKFIDMMFDDDAEIPDEKARYAKQTADFMSKIKSLEDNLSTVLKMERLRGHRVLQEDGSEVIEDDLLA
YLNYCITGNQHPIVLPSCAMYLDSLLGGQEFWAGVVPKIGRRFIQTVAISGLPTQSVPGILTELGELPCE
YRWSTRFIFMDQHEAQSQFDKFRRKWKQKVRGFMDQLLNKQNGAVDEDALSMVADATGAKAEINSRTVAY
GFYTSVVVLMSEDRAEVEESAARIAKMINGRGFAARVETLNTVEAWLGSLPGHGVENIRRPLISTLNLAD
LMPTSSIWTGSNIAPCPFYRPNSPALMQCATSGNTPFWLNLHVRDLGHTLIFGPPGSGKSVLLALIQAQF
RRYENASIYAFDKGMSAYALCKGAGGAHYAVAGDNSPSFAPLADLSSPTDLAWAAEWVDDCLKLQGLVTT
PNQRNEIARALTNMRDTESRTVTDLVSTLQDVQMRAALHVYTLDGPMGHLLDAERDSLSVNSFNVFEIEE
LMSLGDRYVLPVLSYLFRRIEKSLKGQPAMIVLDEAWLMLAHPAFKEKIVEWLKVLRKANCIVVMATQSL
SDAVKSGILDVLKEAAPTKIYLANGEARDEETAAIYRKLGLNARQIEIVARATPKRHYYYVSEQGRRVFD
LALGPLSLAFVGVSDKEAVAKVKALEATYGADWTHHWLADRGLRLSDYVRAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(596-749)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(199-409)

  Protein structure



No available structure.



ID   15711 GenBank   WP_051050760
Name   t4cp2_KF707C_RS28775_pKF707 insolico UniProt ID   _
Length   624 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 624 a.a.        Molecular weight: 69463.45 Da        Isoelectric Point: 6.8138

>WP_051050760.1 type IV secretory system conjugative DNA transfer family protein [Pseudomonas furukawaii]
MSGDNHQIGPQTNTVKKEGRAGHLQKAALLTVLLLLSLSAATQHFAWLFNYQDTLGAGFHHAYWPWMILV
WAAKWYDEFPREFMYSGSLGVLVGCGFVFAIVIYQVFTRHKVKAEEKMHGTARWAEKRDLEDAGFFDNEG
VYVGGWVDSSGTLHYLRHEGPEHILCLAPTRSGKGVGLVIPTLLSWRHSAVITDLKGELWALTAGWRQEH
AGNKVLRFEPASATASVKFNPLDYIRVATENEVGDAQNLATLIVDPDGKGLQDHWQKTSQSLLVGCILHI
IYKAKREGFVASLPAVDDMLADPSRPVSELWEEMTTYPHWNGEVHPLVAASGRDMLDRPEQEGGSVLSTA
KSYLSLYRDPVVRRNVESSDFSIKDLMHHDSPVSLYIVTQPNDKDRLKPLIRVVVNMIIRLLADKMDFEN
GRPVAHYKHRLLMMLDEFPALGKLDIMQESLAFVAGYGLKCYLIVQDTAQLNAAYGRDESITSNCHVRIA
YAPNRMDTAQALSTMTGETTVVKESVTESGKRGGRLDNVSRSYQEVKRNLLTPDECLRLPGPKKDATGGI
VEAGDMLIFSAGRPAAYGKQILYFMDPAFSARAKIPAPAKSDRLHSARPVDLPVITEQEPEIIV

  Protein domains


Predicted by InterproScan.

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

(123-601)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1329..25460

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KF707C_RS29270 6..473 - 468 WP_131679667 hypothetical protein -
KF707C_RS29275 (KF707C_p10) 550..762 - 213 WP_131679666 hypothetical protein -
KF707C_RS28620 896..1198 + 303 WP_081608051 helix-turn-helix domain-containing protein -
KF707C_RS29555 (KF707C_p20) 1329..2675 + 1347 WP_051050700 P-type conjugative transfer protein TrbG virB9
KF707C_RS28630 (KF707C_p30) 2672..4378 + 1707 WP_003449733 PilN family type IVB pilus formation outer membrane protein -
KF707C_RS28635 (KF707C_p40) 4383..5696 + 1314 WP_003449728 type 4b pilus protein PilO2 -
KF707C_RS28640 (KF707C_p50) 5686..6204 + 519 WP_051050699 type IV pilus biogenesis protein PilP -
KF707C_RS28645 (KF707C_p60) 6213..7730 + 1518 WP_003449717 GspE/PulE family protein virB11
KF707C_RS28650 (KF707C_p70) 7727..8827 + 1101 WP_003449715 type II secretion system F family protein -
KF707C_RS28655 (KF707C_p80) 8847..9383 + 537 WP_003449713 type 4 pilus major pilin -
KF707C_RS28660 (KF707C_p90) 9383..10351 + 969 WP_036991922 ATPase, T2SS/T4P/T4SS family virB11
KF707C_RS28665 (KF707C_p100) 10390..11748 + 1359 WP_003449709 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
KF707C_RS28670 (KF707C_p110) 12681..13829 - 1149 WP_003451616 site-specific integrase -
KF707C_RS28675 14073..14513 + 441 WP_051050726 type IV pilus biogenesis protein PilM -
KF707C_RS28680 14510..15034 + 525 WP_003451619 transglycosylase SLT domain-containing protein virB1
KF707C_RS28685 (KF707C_p120) 15349..16284 + 936 WP_003451623 P-type conjugative transfer ATPase TrbB virB11
KF707C_RS28690 (KF707C_p130) 16271..16648 + 378 WP_069776284 TrbC/VirB2 family protein virB2
KF707C_RS28695 (KF707C_p140) 16649..16948 + 300 WP_036992697 conjugal transfer protein TrbD virB3
KF707C_RS28700 (KF707C_p150) 16945..19413 + 2469 WP_003451637 Conjugative transfer protein TrbE virb4
KF707C_RS28705 (KF707C_p160) 19416..20147 + 732 WP_096368078 VirB8/TrbF family protein virB8
KF707C_RS28710 (KF707C_p170) 20157..21110 + 954 WP_003451642 P-type conjugative transfer protein TrbG virB9
KF707C_RS28715 (KF707C_p180) 21107..21523 + 417 WP_003451645 IncP-type conjugative transfer protein TrbH -
KF707C_RS28720 (KF707C_p190) 21529..22911 + 1383 WP_003451648 TrbI/VirB10 family protein virB10
KF707C_RS28725 (KF707C_p200) 22924..23703 + 780 WP_051050727 hypothetical protein virB5
KF707C_RS29395 (KF707C_p210) 23714..23851 + 138 WP_003451661 hypothetical protein -
KF707C_RS28730 (KF707C_p220) 23898..25460 + 1563 WP_003451665 P-type conjugative transfer protein TrbL virB6
KF707C_RS28735 25457..25762 + 306 WP_036992699 TrbM/KikA/MpfK family conjugal transfer protein -
KF707C_RS28740 25759..26025 + 267 WP_036992700 hypothetical protein -
KF707C_RS28745 (KF707C_p230) 26050..26355 + 306 WP_003451669 hypothetical protein -
KF707C_RS28750 (KF707C_p240) 26384..26602 - 219 WP_003451672 hypothetical protein -
KF707C_RS28755 (KF707C_p250) 27210..30452 - 3243 WP_036993419 zincin-like metallopeptidase domain-containing protein -

Host bacterium

ID   21658 GenBank   NZ_AP014863
Plasmid name   pKF707 Incompatibility group   -
Plasmid size   59815 bp Coordinate of oriT [Strand]   37354..37459 [+]
Host baterium   Pseudomonas furukawaii strain KF707

Cargo genes

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