Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100087
Name   oriT_pIP1629 in_silico
Organism   Staphylococcus epidermidis
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   AF045240 (395..510 [+], 116 nt)
oriT length   116 nt
IRs (inverted repeats)      IR1: 1..7, 11..17  (TTGGGGATATTCCCCAA)
  IR2: 30..37, 42..50  (GCTACCAC..GTGGCTAGC)
  IR3: 90..101, 105..116  (ATTTTACTTTAT..ATAAAGTAAAAT)
Location of nic site      64..65
Conserved sequence flanking the
  nic site    		  TGCTTG|CCA
Note   Small Staphylococcal Plasmid, ColE1 superfamily

  oriT sequence  


Download         Length: 116 nt

>oriT_pIP1629
TTGGGGATATTCCCCAACAAGCAGGCGTCGCTACCACGTGAGTGGCTAGCAAAGCCAATGCTTGCCAAACCACTTAACGCCTTTCTTACATTTTACTTTATAGGATAAAGTAAAAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Smith MC et al. (2004) An accessory protein is required for relaxosome formation by small Staphylococcal plasmids. J Bacteriol. 186(11):3363-73. [PMID:15150221]
[2] Jamie A Caryl et al. (2004) Reconstitution of a staphylococcal plasmid-protein relaxation complex in vitro. Journal of bacteriology. 186(11):3374-83. [PMID:15150221]


Relaxase

ID   82 GenBank   AAD02378
Name   MobA1_pIP1629 insolico UniProt ID   Q9Z361
Length   336 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 336 a.a.        Molecular weight: 38491.54 Da        Isoelectric Point: 7.8436

>AAD02378.1 mobilization protein (plasmid) [Staphylococcus epidermidis]
MATTKLSATKSTSRAINYAEKRAVEKSGLNCDVDYAKSSFKASRELYGKTDGNQGHVIIQSFKPGEVTPE
QCNQLGLALAEKLAPNHQVAVYTHADTDHVHNHIVMNSIDLETGKKFNNNKQALRNVRNFNDEVCMEHGL
SVPDKDTARLRYTQTEKAIADPNTKSTAQYSWKDEIREAIDQSQATNMNEFKDHLNQHGIEIERVTPKSI
TYRHLVEDKKVRGRKLGEDYNKGGIEDGFERQIQRRRQQERDSDIECQPKRPISSRDEATKRDTGITQAD
WDQFAQDTNELERSRQAAESARLADEKARRDREERERAKKASRRIINNDRDHGLEL

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(9-242)


  Protein structure


Source ID Structure
AlphaFold DB Q9Z361

  Reference


[1] Smith MC et al. (2004) An accessory protein is required for relaxosome formation by small Staphylococcal plasmids. J Bacteriol. 186(11):3363-73. [PMID:15150221]
[2] Jamie A Caryl et al. (2004) Reconstitution of a staphylococcal plasmid-protein relaxation complex in vitro. Journal of bacteriology. 186(11):3374-83. [PMID:15150221]


Auxiliary protein

ID   119 GenBank   AAD02379
Name   MobB1_pIP1629 insolico UniProt ID   Q9Z380
Length   269 a.a. PDB ID   _
Note   mobilization protein

  Auxiliary protein sequence


Download         Length: 269 a.a.        Molecular weight: 31463.91 Da        Isoelectric Point: 7.5569

>AAD02379.1 mobilization protein (plasmid) [Staphylococcus epidermidis]
MALKDKFNDGDNKNETQTSNASQNDQFQVVMKQLNEIQASLKQIGTNSPKTQMSLSVADKLQNQQDLLMK
RLEEIEKRENERKKRHDELLTTIEITASNFNQATEITQKRFISVAKHYIERINNDNLKQDFQTAIQEELK
DVKTDTHKAIEQLQTNQAELRQANNDYKATMDERIKHNDTAMKQYDQAFHRLTQGITAMFFIVALVMIAF
LALSPLGDWLGVQHFYEWLNYVLKTGHSVWRYLIVIFYLVPYVFFGMLIYAILSAYKRI

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB Q9Z380

  Reference


[1] Smith MC et al. (2004) An accessory protein is required for relaxosome formation by small Staphylococcal plasmids. J Bacteriol. 186(11):3363-73. [PMID:15150221]
[2] Jamie A Caryl et al. (2004) Reconstitution of a staphylococcal plasmid-protein relaxation complex in vitro. Journal of bacteriology. 186(11):3374-83. [PMID:15150221]

ID   120 GenBank   AAD02376
Name   MobC1_pIP1629 insolico UniProt ID   Q9R3U7
Length   127 a.a. PDB ID   _
Note   Bacterial mobilisation protein (MobC); pfam05713

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14529.43 Da        Isoelectric Point: 10.0070

>AAD02376.1 mobilization protein (plasmid) [Staphylococcus epidermidis]
MSEQNTFVASDETVGRNRKPNRKEPKQISFRVSESEYLKLQQSAETLNMSVPAFVKKKAQGARLVAPKLD
QATRQSVAKDLSMLGANANQIAKYCNQHQHEAPNYEALERNISELRERLDEIWKKLN

  Protein domains


Predicted by InterproScan.

Bacterial mobilisation protein (MobC) (MobC)

(81-122)


  Protein structure


Source ID Structure
AlphaFold DB Q9R3U7

  Reference


[1] Smith MC et al. (2004) An accessory protein is required for relaxosome formation by small Staphylococcal plasmids. J Bacteriol. 186(11):3363-73. [PMID:15150221]
[2] Jamie A Caryl et al. (2004) Reconstitution of a staphylococcal plasmid-protein relaxation complex in vitro. Journal of bacteriology. 186(11):3374-83. [PMID:15150221]


Host bacterium

ID   82 GenBank   AF045240
Plasmid name   pIP1629 Incompatibility group   -
Plasmid size   5993 bp Coordinate of oriT [Strand]   395..510 [+]
Host baterium   Staphylococcus epidermidis

Cargo genes

Drug resistance gene   resistance to streptogramin A
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -