Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100074
Name   oriT_pHDC in_silico
Organism   Tetragenococcus halophilus
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NC_010523 (_)
oriT length   64 nt
IRs (inverted repeats)      25,31, 35,41  (GAAAACC..GGTTTTC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   _

  oriT sequence  


Download         Length: 64 nt

>oriT_pHDC
GTAGAATCGTTTAGTATGAGAATAGAAAACCAACGGTTTTCATGAACTTACTAAACGATTCTAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Satomi M et al. (2008) Analysis of a 30 kbp plasmid encoding histidine decarboxylase gene in Tetragenococcus halophilus isolated from fish sauce. Int J Food Microbiol. 126(1-2):202-9. [PMID:18573560]


Relaxase

ID   70 GenBank   YP_001789040
Name   MobA_pHDC insolico UniProt ID   B1B5H0
Length   386 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 386 a.a.        Molecular weight: 44666.18 Da        Isoelectric Point: 10.1019

>YP_001789040.1 mobilization protein MobA (plasmid) [Tetragenococcus halophilus]
MATTHIKRSDSASRLVNYAEKRAVLKDGLNLDVDYAKSQLKQVREVYGNQGKTQAYASRISFSPKEFDPA
NENDQQKALEIAKEVYQKTYPNQQVALYEHADTNALHVHAVIGAIDLETGRKMHGNWQEYREKLVHNTDE
ISQKHGLEVTQVDPNRYEKRTMAEIKMQAKGQPTWKDQIRQAVDGTMANRLITDFQTFRDDLKQKAVDVW
ERGKDLTYQLTGTNYKARGNKLGTAYEKGEIYHELERRTRDHTETRNPDTARPDRTQPNLERNQELSGHA
NSITKQTTDRIDRTASTDRTSQSTSQSGFSNDLEQFRKQQRDQQTTINRDAQRRAQTVQRANTQDKSKDN
RRLKTDKQRPKEQQRDIGKSQQQSKSNRSRDDGPSR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(9-248)


  Protein structure


Source ID Structure
AlphaFold DB B1B5H0

  Reference


[1] Satomi M et al. (2008) Analysis of a 30 kbp plasmid encoding histidine decarboxylase gene in Tetragenococcus halophilus isolated from fish sauce. Int J Food Microbiol. 126(1-2):202-9. [PMID:18573560]


Auxiliary protein

ID   101 GenBank   YP_001789041
Name   MobB_pHDC insolico UniProt ID   B1B5H1
Length   196 a.a. PDB ID   _
Note   _

  Auxiliary protein sequence


Download         Length: 196 a.a.        Molecular weight: 23091.20 Da        Isoelectric Point: 9.3552

>YP_001789041.1 mobilization protein MobB (plasmid) [Tetragenococcus halophilus]
MKRGKFTMSWKDEPETTQRPETQIQPDLTELNQTLKEIRNYQGTQIQLQSKQQIELTEQLQQIEQASQRV
NQAFQTTLNNLENSREINKRQLIETLKGAHKQFKEQTRKINQKTIDVLKQINNDQKSNNETLENLSNNLN
QTVQEMMDQVANRLVGEINQTHKKMSWFEIKNYLYAVIPAGLLSGLIFWLLMHFFA

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B1B5H1

  Reference


[1] Satomi M et al. (2008) Analysis of a 30 kbp plasmid encoding histidine decarboxylase gene in Tetragenococcus halophilus isolated from fish sauce. Int J Food Microbiol. 126(1-2):202-9. [PMID:18573560]

ID   102 GenBank   YP_001789039
Name   MobC_pHDC insolico UniProt ID   B1B5G9
Length   111 a.a. PDB ID   _
Note   _

  Auxiliary protein sequence


Download         Length: 111 a.a.        Molecular weight: 12255.10 Da        Isoelectric Point: 11.1333

>YP_001789039.1 mobilization protein MobC (plasmid) [Tetragenococcus halophilus]
MASSFSNKKPNRKESRQINFRVSEQDYLKLSQSAKTLNMSVPAFVKKKAQGARIIAPKIGAKDAQEITRQ
LAKIGSNLNQLAKHANQGGTVHAPALQELQSEVAKIWQQLT

  Protein domains


Predicted by InterproScan.

Bacterial mobilisation protein (MobC) (MobC)

(69-110)


  Protein structure


Source ID Structure
AlphaFold DB B1B5G9

  Reference


[1] Satomi M et al. (2008) Analysis of a 30 kbp plasmid encoding histidine decarboxylase gene in Tetragenococcus halophilus isolated from fish sauce. Int J Food Microbiol. 126(1-2):202-9. [PMID:18573560]


Host bacterium

ID   70 GenBank   NC_010523
Plasmid name   pHDC Incompatibility group   _
Plasmid size   29924 bp Coordinate of oriT [Strand]   
Host baterium   Tetragenococcus halophilus

Cargo genes

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