Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100181
Name   oriT_ColE1 experimental
Organism   Escherichia coli
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NC_001371 (1462..1521 [-], 60 nt)
oriT length   60 nt
IRs (inverted repeats)      3..12, 16..25  (GTGTCGGGGC..GCCCTGACCC)
Location of nic site      56..57
Conserved sequence flanking the
  nic site    		  CTGG|CTTA
Note   The R13 amino residue of auxiliary protein MbeC_ColE1 is essential to the DNA-binding activity [PMID:19114496].

  oriT sequence  


Download         Length: 60 nt

>oriT_ColE1
GGGTGTCGGGGCGCAGCCCTGACCCAGTCACGTAGCGATAGCGGAGTGTATACTGGCTTA

Visualization of oriT structure (The oriT was characterized experimentally)

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Rogge ML et al. (2013) Comparison of Vietnamese and US isolates of Edwardsiella ictaluri. Dis Aquat Organ. 106(1):17-29. [PMID:24062549]
[2] Varsaki A et al. (2009) Analysis of ColE1 MbeC unveils an extended ribbon-helix-helix family of nicking accessory proteins. J Bacteriol. 191(5):1446-55. [PMID:19114496]
[3] Francia MV et al. (2004) A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]


Relaxosome

This oriT is a component of a relaxosome.

Relaxosome name   RelaxosomeColE1 in_silico
oriT   oriT_ColE1 experimental
Relaxase   MbeA_ColE1 experimental (MOBP)
Auxiliary protein   MbeB_ColE1 experimental, MbeC_ColE1 experimental

  Reference


[1] Rogge ML et al. (2013) Comparison of Vietnamese and US isolates of Edwardsiella ictaluri. Dis Aquat Organ. 106(1):17-29. [PMID:24062549]
[2] Varsaki A et al. (2009) Analysis of ColE1 MbeC unveils an extended ribbon-helix-helix family of nicking accessory proteins. J Bacteriol. 191(5):1446-55. [PMID:19114496]
[3] Francia MV et al. (2004) A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]


Relaxase

ID   174 GenBank   CAA33883
Name   MbeA_ColE1 experimental UniProt ID   P13658
Length   517 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 517 a.a.        Molecular weight: 57808.29 Da        Isoelectric Point: 6.0811

>CAA33883.1 unnamed protein product (plasmid) [Plasmid ColE1]
MIVKFHARGKGGGSGPVDYLLGRERNREGATVLQGNPEEVRELIDATPFAKKYTSGVLSFAEKELPPGGR
EKVMASFERVLMPGLEKNQYSILWVEHQDKGRLELNFVIPNMELQTGKRLQPYYDRADRPRIDAWQTLVN
HHYGLHDPNAPENRRTLTLPDNLPETKQALAEGVTRGIDALYHAGEIKGRQDVIQALTEAGLEVVRVTRT
SISIADPNGGKNIRLKGAFYEQSFADGRGVREKAERESRIYRENAEQRVQEARRICKRGCDIKRDENQRR
YSPVHSLDRGIAGKTPGRGERGDDAAQEGRVKAGREYGHDVTGDSLSPVYREWRDALVSWREDTGEPGRN
QEAGRDIAETEREDMGRGVCAGREQEIPCPSVREISGGDSLSGERVGTSEGVTQSDRAGNTFAERLRAAA
TGLYAAAERMGERLRGIAEDVFAYATGQRDAERAGHAVESAGAALERADRTLEPVIQRELEIREERLIQE
REHVLSLERERQPEIQERTLDGPSLGW

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(57-237)


  Protein structure


Source ID Structure
AlphaFold DB P13658

  Reference


[1] Varsaki A et al. (2009) Analysis of ColE1 MbeC unveils an extended ribbon-helix-helix family of nicking accessory proteins. J Bacteriol. 191(5):1446-55. [PMID:19114496]
[2] Francia MV et al. (2004) A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]


Auxiliary protein

ID   250 GenBank   CAA33884
Name   MbeB_ColE1 experimental UniProt ID   P13659
Length   172 a.a. PDB ID   _
Note   _

  Auxiliary protein sequence


Download         Length: 172 a.a.        Molecular weight: 19547.43 Da        Isoelectric Point: 7.3220

>CAA33884.1 unnamed protein product (plasmid) [Plasmid ColE1]
MSNLLQTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNETKIRDAIALFTASTEESLEKHREGV
KEAMMQHRRDVLKLAGNTGMMLLGIVFLLFTASGGTLWYLGGRIQANLEEIRKQEETLQKLNAKTWGVEF
VQDGNRKFLVLPYGKSAEVIPFQGKEWVHLKE

  Protein domains


Predicted by InterproScan.

MbeB-like, N-term conserved region (MbeB_N)

(1-52)


  Protein structure


Source ID Structure
AlphaFold DB P13659

  Reference


[1] Varsaki A et al. (2009) Analysis of ColE1 MbeC unveils an extended ribbon-helix-helix family of nicking accessory proteins. J Bacteriol. 191(5):1446-55. [PMID:19114496]
[2] Francia MV et al. (2004) A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]

ID   251 GenBank   CAA33882
Name   MbeC_ColE1 experimental UniProt ID   P13657
Length   107 a.a. PDB ID   _
Note   The R13 amino residue of auxiliary protein MbeC_ColE1 is essential to the DNA-binding activity [PMID:19114496].

  Auxiliary protein sequence


Download         Length: 107 a.a.        Molecular weight: 11855.71 Da        Isoelectric Point: 10.8973

>CAA33882.1 unnamed protein product (plasmid) [Plasmid ColE1]
MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTLAPPLLRQLAAIGNNLNQTARKVNSG
QWSSGDRVQVVAALMAIGDELRRLRLAVREQGARDDS

  Protein domains


Predicted by InterproScan.

Bacterial mobilisation protein (MobC) (MobC)

(50-94)


  Protein structure


Source ID Structure
AlphaFold DB P13657

  Reference


[1] Varsaki A et al. (2009) Analysis of ColE1 MbeC unveils an extended ribbon-helix-helix family of nicking accessory proteins. J Bacteriol. 191(5):1446-55. [PMID:19114496]
[2] Francia MV et al. (2004) A classification scheme for mobilization regions of bacterial plasmids. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]


Host bacterium

ID   174 GenBank   NC_001371
Plasmid name   ColE1 Incompatibility group   ColRNAI
Plasmid size   6646 bp Coordinate of oriT [Strand]   1462..1521 [-]
Host baterium   Escherichia coli

Cargo genes

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