Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100630
Name   oriT_pCC1557 in_silico
Organism   Pseudomonas syringae CC1557
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP007015 (26868..27013 [+], 146 nt)
oriT length   146 nt
IRs (inverted repeats)      IR1: 38..43, 52..57  (AAAAAG..CTTTTT)
  IR2: 72..83, 87..98  (GTGCCAAAGGGG..CCCCTTTGAAAC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 146 nt

>oriT_pCC1557
CGAAATCGCTAAACAGGCACGTTACCGATTGTCTACAAAAAAGAGCTTCGCCTTTTTCGTAGCCAATCGACGTGCCAAAGGGGATACCCCTTTGAAACCCCGCGGAGCGGGAAAGCGTTGTTGTTGTCGTTGTTGGTTGTCGTCAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   702 GenBank   WP_080274973
Name   Relaxase_pCC1557 insolico UniProt ID   _
Length   1249 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1249 a.a.        Molecular weight: 138427.86 Da        Isoelectric Point: 9.3676

>WP_080274973.1 LPD7 domain-containing protein [Pseudomonas syringae]
MLIRVSGYNTGAQEYLEQGNKSGREFTRDELDHRLIIEGQLSVTRAIYESIPDHGQDRYLTFTLSFKEDT
VSPELLKAVTTDFKNFFMHAYKPEEFNLYAEAHLPKMKTVTDRKTGEVIDRKPHIHIIIPRINLLSGNEA
NPVDVYKNHEKYFEAFQEHINQKYGLSSPRENVRADITDAASVLSRYKGDDFYGKNRQFKQQLVKQVIER
GVTSRADFYALVAEHGETRIRNEGKDNEYISVKLPGDAKGTNLKDTIFQDAFIVRRELKKPPLEASVIQD
RLLAWPQRAREIKYVNKATPKFRKQYSQASPEERVRLLAERENNFYRAHGDDYESVHTWQRQRDNQRSPA
ETAGRRTAAPADGLQDLSVSDVADHRQAGPTRSRDGALLLPSDAHVHVGQSQPGGDSGLRSSVPAGGRGR
RAGSTTERGRGGSQPAAVSQETKGTATPAGTTGRRRAGAGKPRNTRVRAGRVVPPYAQNPHRVATIADIE
ERGRRLFDPLKRPSDNALVFYRSSSRPQVAGQLPQARAATTTPVQSTAGRRPRSSGKPRPPRQWRPGAVP
PYAKNPHRVATVADIEQRARMLFDPLKRPADKALVFKRASIKALTVNKHASTVAAYFTRQAQHNQIAPAH
RRAIRRIDQQYFALRRAVFSDQRLTRQDKAQLVSVLTFERLKAREQFHNPKPNIEVNLMGSAAIRNLLDD
EKEDPGFSISGARGPAPEGVRERVKRVMDRFAKQVDPVAASERARDLSAKDLYTRKAKFSQNVHYLDKQT
DKTLFVDTGTTISMRRTGITEAGVSVALQLARERFGSTLTINGTAEFKKLVIEAVAKNGLDVHFTDKAMN
QSLADRRAELDIERDGQSIGPATDLPRHVDDATRDVRDQADHLGVTVPIEALYGQGKTADQVSQALATQL
DTVPEPERIAFVETVAITLGIPERGQPKGDQAFAQWQAQRAQPAANSAASATSEAQANVPTPSDAVSEPV
SPEAAKPALANDPDLQSPSELVRLEAQWRRDFPMSEAEVRASDTVMGLRGEDHAVWIIATNDKTPEAAAL
LTAYMENDSYREAFKASIVAAYKQVENSPKLVDDLDHLTAMAAQIVNEVEERLFPTPQAATGQTAPSRSK
VIEGTLIEHGEAPYQHNDDNQMSYFVTLKPEGGKPRTVWGVGLEEAMSDADLKQGDQVRLQDLGTQPVVV
QVIEEDGTVTDKTVNRREWSAQPVAPEREVAETTPKGQAAAAGTPELSSPDEDDGMSVD

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(760-845)

Relaxase/Mobilisation nuclease domain (Relaxase)

(40-253)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5880..16246

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N018_RS25380 (N018_25870) 1208..1534 + 327 WP_025391071 type II toxin-antitoxin system RelE/ParE family toxin -
N018_RS25385 (N018_25875) 1646..1933 + 288 WP_025391072 XRE family transcriptional regulator -
N018_RS25390 (N018_25880) 2123..2896 - 774 WP_017279416 helix-turn-helix transcriptional regulator -
N018_RS25395 (N018_25885) 3005..4105 + 1101 WP_025391073 polyamine ABC transporter substrate-binding protein -
N018_RS25400 (N018_25890) 4202..4399 + 198 WP_025391074 hypothetical protein -
N018_RS25405 (N018_25895) 4411..4776 - 366 WP_025391075 helix-turn-helix transcriptional regulator -
N018_RS25410 (N018_25900) 5024..5536 + 513 WP_010199861 transcription termination/antitermination NusG family protein -
N018_RS25415 (N018_25905) 5625..5867 + 243 WP_017279420 hypothetical protein -
N018_RS25420 (N018_25910) 5880..6587 + 708 WP_025391076 lytic transglycosylase domain-containing protein virB1
N018_RS25425 (N018_25915) 6587..6922 + 336 WP_025391077 hypothetical protein -
N018_RS25430 (N018_25920) 6935..7411 + 477 WP_040118647 VirB3 family type IV secretion system protein virB3
N018_RS25435 (N018_25925) 7326..9824 + 2499 WP_229631655 conjugal transfer protein virb4
N018_RS25440 (N018_25930) 9821..10507 + 687 WP_025391079 P-type DNA transfer protein VirB5 -
N018_RS25445 (N018_25935) 10536..10889 + 354 WP_025391080 hypothetical protein -
N018_RS25450 (N018_25940) 10900..11835 + 936 WP_025391081 type IV secretion system protein virB6
N018_RS25455 (N018_25945) 12261..13049 + 789 WP_025391082 type IV secretion system protein virB8
N018_RS25460 (N018_25950) 13039..13848 + 810 WP_025391083 P-type conjugative transfer protein VirB9 virB9
N018_RS25465 (N018_25955) 13835..15205 + 1371 WP_025391084 TrbI/VirB10 family protein virB10
N018_RS25470 (N018_25960) 15215..16246 + 1032 WP_025391085 P-type DNA transfer ATPase VirB11 virB11
N018_RS25475 (N018_25965) 16256..16612 + 357 WP_010217013 hypothetical protein -
N018_RS25480 (N018_25970) 16738..19128 + 2391 WP_025391086 ATP-binding protein -
N018_RS25485 (N018_25975) 19215..19445 + 231 WP_025391087 hypothetical protein -
N018_RS25490 (N018_25980) 19445..21097 + 1653 WP_025391088 type IV secretory system conjugative DNA transfer family protein -

Host bacterium

ID   1090 GenBank   NZ_CP007015
Plasmid name   pCC1557 Incompatibility group   _
Plasmid size   53629 bp Coordinate of oriT [Strand]   26868..27013 [+]
Host baterium   Pseudomonas syringae CC1557

Cargo genes

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