Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103440
Name   oriT_AGR_457|unnamed1 in_silico
Organism   Serratia ficaria strain AGR_457
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MT039163 (15982..16414 [-], 433 nt)
oriT length   433 nt
IRs (inverted repeats)      135..141, 153..159  (AAATATT..AATATTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 433 nt

>oriT_AGR_457|unnamed1
ACTGCGATGCAGGATAGGGCAAACGCCGCAAAATGACGTCTCTGACGCCATTCCGCAACGTTTGCCCGGTGACCTACAGTCGGTTCTTGTTGGAGAGATTTATGAAATATCAGGTTAAAGAGTTTATTAACGATAAATATTCTAAAGCTGTTAATATTTTAAAGGATAACCTTAAAGAACACTACCATGTTTTTTATGGTTTGAGATTGAGTGAGATTCTTTTCCCTGCCAGTGAATACGGCTCTGATGCTTTCTTTAATGAGTTCGAAGCAATAAACAGCATTACATTGCCATTAATTATTTTTGAAATGAATGAACGTACGCCTGTAGCTATCATTGGCTTTGAACAAATTGCAGGTGCTGTTTTTGTTGAGCAATTAGACATTAAGGTTTTGGTTATTGACGACCTGTCTGAATTGCTGACTAATGAAAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2565 GenBank   WP_061800366
Name   Relaxase_MOO55_RS00180_AGR_457|unnamed1 insolico UniProt ID   _
Length   386 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 386 a.a.        Molecular weight: 44381.77 Da        Isoelectric Point: 10.6017

>WP_061800366.1 MobP1 family relaxase [Serratia ficaria]
MGVYVDKEFRVKRKSSEAGRKSAFAHKVKNGGKNYQRNVQERINRKGASKEVVVKISGGAITRQGVRNSI
DYMSRESELPVMSESGQVWKGDEIQEAKEHMIDRANDPQNVFDDKGKENKKVTQNIVFSPPVSAKVKPED
LLESVRKTMHKKYPNHRFVLGYHNDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSIKDAHKTAPKRQKGVYEVVDVGYDHYQNDKTKPKQHFIKLKTLNKGVEKTYWGADF
GELTTRENVKKGDLVKLKKLGQKEVKIPALDKNGVQHGWKTAHRNEWQLENLGVKGIDRTSSSSKELVLN
SAEMIKKQQLQMRNFSQIKQSMIQSEQKVKIGIRLG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(90-240)


  Protein structure



No available structure.




T4CP

ID   2360 GenBank   WP_241389482
Name   t4cp2_MOO55_RS00020_AGR_457|unnamed1 insolico UniProt ID   _
Length   611 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 611 a.a.        Molecular weight: 69143.05 Da        Isoelectric Point: 8.0650

>WP_241389482.1 type IV secretory system conjugative DNA transfer family protein [Serratia ficaria]
MNIKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREKLLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGLTGAEAHFNNLAGQYWTGLAKLLHFFINYDPSWLGEFGLKPVFSI
GSVVDLYSNIDRELILSKREDLEGTKGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDMSLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGVEGAKTLMSAHPCRIIYAVSEEDDAKKIS
EKLGYITTKSTGSSKTSGRSTSKSSSESEAQRALVLPQELGTLDFKEVFIILKGENPVKAEKALYFLDPY
FMDRLMMVSPKLTELTASLNKTKKVLGVKGLKYPSKEKMLSVGELESEVLL

  Protein domains


Predicted by InterproScan.

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

(102-572)

  Protein structure



No available structure.



ID   2361 GenBank   WP_073970390
Name   t4cp2_MOO55_RS00200_AGR_457|unnamed1 insolico UniProt ID   _
Length   917 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 917 a.a.        Molecular weight: 104933.85 Da        Isoelectric Point: 6.2300

>WP_073970390.1 VirB3 family type IV secretion system protein [Serratia ficaria]
MSTVFKGLTRPALIRGLGVPLYPFLGMCVICVLLGVWIHEAMYALILPGWYAIKRVTKIDERFFDLLYLR
MQIKGNPLANKRFNAVHYAGSSYDAVDISKVDNFMKLKDQSSLEELIPYSSHITDNLIVTKNHDLLATWQ
IDGAYFECVDEADLALLTDQLNTLIRSFDGKPVTFYTHRIRVRKEVRPVYNSKIPFVNRVMNDYYESLSA
AEYFENKLYLTVCYKPFSAEDKVTHFLSRKKGNKNIFEEPINDMNEICGRLSTYLSRFHSRRLGLYEENN
IVYSEQLTLFQKLLSGRWQKVRVTNSPFYTYLGGKDLFFGNDAGQITASDHARYFRCIEIKDYFQETDAG
IFDALMYLPVEYVQTSSFTPIDKQSAITALDDQIDKLEMTDDAAKSLLADLKVALDMVSSGYISFGKSHQ
TLIVYADSPERLVKDTNIVTTTLEDLGLIVTYSTLSLGAAYFAQLPGNYTLRPRLSSISSLNFAEMESFH
NFFTGKEKENTWGNCLLTLGGSGNDIYHLNYHMTTEHQNYFGKNPTLGHTEILGTSNVGKTVVMMAKAFA
AQQFGTPESFPPERKLKKLTTVWFDKDRAAEPGIRSMGGAYYRVKEGEPTGWNPAALPPTKRNISFMKDL
VRLLCTLNSEPLDDYQNRLISDAVERLMQRSDRSYPISKLRPLILEPDDTETRRHGLKARLNAWVQGGEF
GWVFDNPDDTFDVDNLDVFGIDGTEFLDNKVLSSAASFYLIYRVTMLADGRRLLIYMDEFWQWINNEAFR
DFVYNKLKTARKLDMVLVVATQSPDELIKSPIAAAVREQCATHIYLANPKAKRSEYVDELQVRELYFDKI
KAIDPLSRQFLVVKNPQRKGESDDFAAFARLDLGRAAYYLPVLSASKPQLELFDEIWKEGMKPEEWLDTY
LERANLI

  Protein domains


Predicted by InterproScan.

Type IV secretory pathway, VirB3-like protein (VirB3)

(2-83)

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

(272-474)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 25233..35144

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MOO55_RS00150 (457p_00030) 20660..20941 + 282 WP_241389479 hypothetical protein -
MOO55_RS00155 (457p_00031) 20931..21173 + 243 WP_025367753 hypothetical protein -
MOO55_RS00160 (457p_00032) 21267..21605 + 339 WP_061800698 hypothetical protein -
MOO55_RS00165 (457p_00033) 21692..21844 + 153 WP_241389480 hypothetical protein -
MOO55_RS00170 (457p_00034) 21841..22098 + 258 WP_004199355 hypothetical protein -
MOO55_RS00175 (457p_00035) 22438..22983 + 546 WP_241389481 DNA distortion polypeptide 1 -
MOO55_RS00180 (457p_00036) 22986..24146 + 1161 WP_061800366 MobP1 family relaxase -
MOO55_RS00185 (457p_00037) 24500..25009 + 510 WP_021542855 transcription termination/antitermination NusG family protein -
MOO55_RS00190 (457p_00039) 25233..25877 + 645 WP_073970391 lytic transglycosylase domain-containing protein virB1
MOO55_RS00195 (457p_00040) 25861..26151 + 291 WP_025367759 TrbC/VirB2 family protein virB2
MOO55_RS00200 (457p_00041) 26176..28929 + 2754 WP_073970390 VirB3 family type IV secretion system protein virb4
MOO55_RS00205 (457p_00042) 28940..29710 + 771 WP_025367761 type IV secretion system protein -
MOO55_RS00210 (457p_00043) 29720..29977 + 258 WP_071886190 EexN family lipoprotein -
MOO55_RS00215 (457p_00044) 29989..31044 + 1056 WP_061800365 type IV secretion system protein virB6
MOO55_RS00220 (457p_00045) 31239..31967 + 729 WP_021562502 type IV secretion system protein virB8
MOO55_RS00225 (457p_00046) 31973..32902 + 930 WP_021542862 TrbG/VirB9 family P-type conjugative transfer protein virB9
MOO55_RS00230 (457p_00047) 32899..34101 + 1203 WP_061800363 VirB10/TraB/TrbI family type IV secretion system protein virB10
MOO55_RS00235 (457p_00048) 34113..35144 + 1032 WP_061800361 P-type DNA transfer ATPase VirB11 virB11
MOO55_RS00240 (457p_00049) 35147..35344 + 198 WP_157079278 hypothetical protein -

Host bacterium

ID   3883 GenBank   NZ_MT039163
Plasmid name   AGR_457|unnamed1 Incompatibility group   IncX3
Plasmid size   36620 bp Coordinate of oriT [Strand]   15982..16414 [-]
Host baterium   Serratia ficaria strain AGR_457

Cargo genes

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