Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   112896
Name   oriT_pPM400 in_silico
Organism   Bacillus badius strain NBPM-293
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP082364 (40720..40761 [-], 42 nt)
oriT length   42 nt
IRs (inverted repeats)      3..8, 16..21  (CCCCAC..GTGGGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 42 nt

>oriT_pPM400
AACCCCACACGTTAAGTGGGGGCATTTTTCCCTTATGCTCTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8299 GenBank   WP_041098556
Name   mobP2_K7T73_RS20125_pPM400 insolico UniProt ID   _
Length   409 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 409 a.a.        Molecular weight: 48956.34 Da        Isoelectric Point: 9.8878

>WP_041098556.1 MobP2 family relaxase [Bacillus badius]
MSRSPGVVLKSKFVMPSASEYNNYVEYMDRDDVKREVQVNRHSQAVNDFQVYHSYINYMGDEEKQGSLFT
SDIDELNSKQKRELKKIFHLAQQNGSPLWQDVISFDNQWLQKQALYDSKTGALDEEKIRNVVREAIKEML
KAENMEDTAVWSAAIHYNTDNIHVHVATVEPFPTREKKRIFDKETNEWTEQYRAKRKQGTLDKMKSRVAN
TILDRTKERNRINDLIRGSVSTKKSVDLATYRKTKRLFQKAIKKLPEDRKKWQYGYQAINDARPYIDEIV
EVYLNTYHKKEMRELHKLLDDEVKVMKELYGEGSQYQKYKETKLNDLQKRLGNAVLVEIRAYDKRVRQME
AQTFYAKNHRSYTQYKWRRSQSLDSAIRNLQFRLRKSFHDYQKDRNVEEFDRMLDGYER

  Protein domains


Predicted by InterproScan.

MobL relaxases (MobL)

(4-376)


  Protein structure



No available structure.




T4CP

ID   9621 GenBank   WP_223664252
Name   t4cp2_K7T73_RS20200_pPM400 insolico UniProt ID   _
Length   740 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 740 a.a.        Molecular weight: 84077.05 Da        Isoelectric Point: 5.3346

>WP_223664252.1 VirD4-like conjugal transfer protein, CD1115 family [Bacillus badius]
MILVSGFLFVSFFLANFLLAFLQELLMALKQFSENPETVDFSLEWGSFFVFQKTLLPFYIGFYIIALIGV
VKFIYNVRMNYQSLNEGQHGTSEFETVKELKKQYKVIPASEKEYEGHGGVIVAGLQEKHRPYRLLIDEGP
IHSMVIGITRSGKGETFVVPMIDVISRAKEKASMVVNDPKGELAAASYETLKERGYEVYIFNLIQQQMSM
GFNPLEIVVDAWKKGKTSFAQQYANSVAFSLYNDPNAKDPYWSNSAKSLVTAIILALTEDAVATGKEEKV
NMYSVANFLSTLGSDNDDQGNNALDLFFKSRAENNPARMMYATSNFAAGNTRASIFSTAMDKLQIFTLEP
NAKLTSYNSLPLTRIGFGDKPVAIFMATPDYDESNHVLASIFVSQLYRINAEKATMSPSGKMKRQVHFLL
DEFGNMPTVDGMSSMVTVGAGRGFRFHLIVQAYSQLKTKYGDEADTIIGNCSNQIYILTKDQKTAEQFSS
LVGKKTITDVSRSGKLLSTDKSHSESTKERPLLMPDELMRLKEGESVVVRANKRQDNKRRKIEPKPIYNR
GVTAHKFRWEYLADDFDTSKSLMELPILSNDYHDMNLREMVFTTKTESDQFVPIVSLIGKEAFLQFKKEV
RKLLIITGEDLPLNNIDEWTAIQLFSYLTFQTECDPGLFTMMINKCLATYLPESVTNDWIERMKLVREKQ
QEQKNEVNKLEDRLEEENEENYSDCGDEEDIKQQLKNEIM

  Protein domains


Predicted by InterproScan.

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

(139-543)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 41893..58095

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K7T73_RS20120 (K7T73_20085) 37760..38515 - 756 WP_223664153 Fic family protein -
K7T73_RS20125 (K7T73_20090) 38600..39829 - 1230 WP_041098556 MobP2 family relaxase -
K7T73_RS20130 (K7T73_20095) 39826..40269 - 444 WP_041098553 hypothetical protein -
K7T73_RS20135 (K7T73_20100) 40244..40585 - 342 WP_041098551 ribbon-helix-helix protein, CopG family -
K7T73_RS20140 (K7T73_20105) 40845..41840 - 996 WP_052475181 hypothetical protein -
K7T73_RS20145 (K7T73_20110) 41893..42954 - 1062 WP_052475180 NlpC/P60 family protein orf14
K7T73_RS20150 (K7T73_20115) 42957..43556 - 600 WP_041098549 DUF6556 family protein -
K7T73_RS20155 (K7T73_20120) 43558..45513 - 1956 WP_223664155 VirB4 family type IV secretion system protein virb4
K7T73_RS20160 (K7T73_20125) 45524..46192 - 669 WP_041114328 hypothetical protein -
K7T73_RS20165 (K7T73_20130) 46173..46529 - 357 WP_041098543 DUF5592 family protein traL
K7T73_RS20170 (K7T73_20135) 46526..48850 - 2325 WP_223664157 pLS20_p028 family conjugation system transmembrane protein virB6
K7T73_RS20175 (K7T73_20140) 48885..49460 - 576 WP_041098539 hypothetical protein -
K7T73_RS20180 (K7T73_20145) 49486..50229 - 744 WP_052475179 type II secretion system F family protein -
K7T73_RS20185 (K7T73_20150) 50222..51343 - 1122 WP_041098535 ATPase, T2SS/T4P/T4SS family virB11
K7T73_RS20190 (K7T73_20155) 51336..51605 - 270 WP_223664159 YdbC family protein -
K7T73_RS20195 (K7T73_20160) 51633..52334 - 702 WP_041098533 type II secretion system F family protein -
K7T73_RS20200 (K7T73_20165) 52353..54575 - 2223 WP_223664252 VirD4-like conjugal transfer protein, CD1115 family -
K7T73_RS20205 (K7T73_20170) 54656..55012 - 357 WP_041098529 hypothetical protein -
K7T73_RS20210 (K7T73_20175) 55024..55452 - 429 WP_041098527 hypothetical protein -
K7T73_RS20215 (K7T73_20180) 55459..56862 - 1404 WP_223664161 toprim domain-containing protein -
K7T73_RS20220 (K7T73_20185) 56825..57778 - 954 WP_223664163 hypothetical protein -
K7T73_RS20225 (K7T73_20190) 57862..58095 - 234 WP_041098523 pilin virB2
K7T73_RS20230 (K7T73_20195) 58103..58354 - 252 WP_082821652 hypothetical protein -
K7T73_RS20235 (K7T73_20200) 58421..58588 - 168 WP_169713124 hypothetical protein -
K7T73_RS20240 (K7T73_20205) 58998..59396 - 399 WP_063384069 hypothetical protein -
K7T73_RS20245 (K7T73_20210) 59414..60106 - 693 WP_063384068 hypothetical protein -
K7T73_RS20250 (K7T73_20215) 60367..62661 - 2295 WP_223664170 hypothetical protein -

Host bacterium

ID   13331 GenBank   NZ_CP082364
Plasmid name   pPM400 Incompatibility group   -
Plasmid size   395960 bp Coordinate of oriT [Strand]   40720..40761 [-]
Host baterium   Bacillus badius strain NBPM-293

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrID1