Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200038
Name   oriT_ICECloUPII95-1 in_silico
Organism   Mageeibacillus indolicus UPII9-5
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   CP001850 (540716..540930 [+], 215 nt)
oriT length   215 nt
IRs (inverted repeats)      61..76, 80..95  (ACTTAACCCCCCGTAT..ACAGGGGGGTACAAAT)
  123..134, 139..150  (GAAAATCCTTTG..CAAGGGATTTAC)
Location of nic site      135..136
Conserved sequence flanking the
  nic site    		  TGG|T
Note   blastn alignment with the oriT_Tn916

  oriT sequence  


Download         Length: 215 nt

>oriT_ICECloUPII95-1
AAGCGGAAGTCGCAGGTGTGGACTGATCTTGCTGGCTGGTGTGGCAATAGCCACGCCAGCACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATACGCCTTTTTGATTGGAGGGATTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   252 GenBank   ADC91495
Name   Relaxase_ICECloUPII95-1 insolico UniProt ID   D3R2T4
Length   401 a.a. PDB ID   
Note   DNA-binding helix-turn-helix protein

  Relaxase protein sequence


Download         Length: 401 a.a.        Molecular weight: 47398.10 Da        Isoelectric Point: 6.5091

>ADC91495.1 DNA-binding helix-turn-helix protein [Mageeibacillus indolicus UPII9-5]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK

  Protein domains


Predicted by InterproScan.

Helix-turn-helix (HTH_3)

(15-53)

Replication initiation factor (Rep_trans)

(169-373)

Rolling Circle replication initiation protein N-terminal domain (Rol_Rep_N)

(73-161)


  Protein structure



No available structure.




T4CP

ID   252 GenBank   ADC90477
Name   T4CP_ICECloUPII95-1 insolico UniProt ID   D3R2T5
Length   461 a.a. PDB ID   _
Note   FtsK/SpoIIIE family protein

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53370.27 Da        Isoelectric Point: 9.0687

>ADC90477.1 FtsK/SpoIIIE family protein [Mageeibacillus indolicus UPII9-5]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure


Source ID Structure
AlphaFold DB D3R2T5


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 538611..550020

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HMPREF0868_1220 534550..535209 + 660 ADC90884 single-strand binding family protein -
HMPREF0868_1219 535352..535558 + 207 ADC90622 DNA-binding helix-turn-helix protein -
HMPREF0868_1218 535649..536674 + 1026 ADC91064 hypothetical protein -
HMPREF0868_1217 536674..537564 + 891 ADN43920 hypothetical protein -
HMPREF0868_1216 537568..538287 + 720 ADN43921 hypothetical protein -
HMPREF0868_1215 538611..538925 + 315 ADC91050 hypothetical protein orf23
HMPREF0868_1214 538941..539327 + 387 ADC91314 hypothetical protein orf23
HMPREF0868_1213 539356..540741 + 1386 ADC90477 FtsK/SpoIIIE family protein virb4
HMPREF0868_1212 540919..542124 + 1206 ADC91495 DNA-binding helix-turn-helix protein -
HMPREF0868_1211 542167..542388 + 222 ADC91391 hypothetical protein orf19
HMPREF0868_1210 542505..542999 + 495 ADC91369 antirestriction protein ArdA -
HMPREF0868_1209 542974..543480 + 507 ADC90567 hypothetical protein orf17a
HMPREF0868_1208 543464..544579 + 1116 ADN43922 hypothetical protein -
HMPREF0868_1207 544576..545910 + 1335 ADN43923 hypothetical protein virb4
HMPREF0868_1206 545913..548090 + 2178 ADC91103 hypothetical protein orf15
HMPREF0868_1205 548087..549088 + 1002 ADC91579 NlpC/P60 family protein orf14
HMPREF0868_1204 549103..550020 + 918 ADC90887 hypothetical protein orf13
HMPREF0868_1203 550265..550381 + 117 ADC90627 tetracycline resistance determinant leader peptide -
HMPREF0868_1202 550397..552316 + 1920 ADC90616 putative translation elongation factor G -
HMPREF0868_1201 552662..553015 - 354 ADC91354 DNA-binding helix-turn-helix protein -
HMPREF0868_1200 553520..553942 + 423 ADC91773 RNA polymerase sigma factor, sigma-70 family -
HMPREF0868_1199 554233..554361 - 129 ADC90905 hypothetical protein -
HMPREF0868_1198 554630..554833 + 204 ADC90371 DNA binding domain, excisionase family -

Host bacterium

ID   43 Element type   Transposon
Element name   ICECloUPII95-1 GenBank   CP001850
Element size   1809746 bp Coordinate of oriT [Strand]   540716..540930 [+]
Host bacterium   Mageeibacillus indolicus UPII9-5 Coordinate of element   538276..556307

Cargo genes

Drug resistance gene   tet(M)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -