Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100112 |
| Name | oriT_pMdT1  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium |
| Sequence Completeness | core |
| NCBI accession of oriT (coordinates [strand]) | NC_019133 (1978..2041 [+], 64 nt) |
| oriT length | 64 nt |
| IRs (inverted repeats) | IR1: 5..12, 16..23 (TTCGGGGC..GCCCTGAA) IR2: 32..36, 37..41 (CTAGC..GCTAG) |
| Location of nic site | 56..57nt |
| Conserved sequence flanking the nic site |
CTGG|CTTA |
| Note | ColE1 superfamily |
oriT sequence
Download Length: 64 nt
AGGTTTCGGGGCGCAGCCCTGAACCAGTCACCTAGCGCTAGCGGAGTGTATACTGGCTTAGTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Reference
[1] de Toro M et al. (2013) pMdT1, a small ColE1-like plasmid mobilizing a new variant of the aac(6')-Ib-cr gene in Salmonella enterica serovar Typhimurium. J Antimicrob Chemother. 68(6):1277-80. [PMID:23361643]
Relaxase
| ID | 107 | GenBank | YP_006957893 |
| Name | MobA_pMdT1 |
UniProt ID | K4I4Y4 |
| Length | 516 a.a. | PDB ID | |
| Note | mobilization protein MobA | ||
Relaxase protein sequence
Download Length: 516 a.a. Molecular weight: 57109.87 Da Isoelectric Point: 9.1312
MPDSSGCGMPCWKRVQTMIVKFHPRGRGGGAGPVDYLLGKDRQRDGATVLQGKPEEVRELIDASPYAKKY
TSGVLSFAEKDLPPGQREKLMASFERVLMPGLDKDQYSVLWVEHQDKGRLELNFLIPNMELLTGRRLQPY
YDRADRPRIDAWQTIVNGRLGLHDPNAPENRRALVTPSALPKTKQEAAQAITRGLLALASSGELKTRQDV
TEALESAGFEVVRTTKSSISIADPDGGRNIRLKGAIYEQSFNAGKGLRAEIESAAAEYRRDAESRIQRAR
EVCQSGTERKREENQRRHPRPRPEAVLSHEPAHERHGAYGQPDVADHRPGVYTADSIGRKHSMVAGAADT
RQLHDHPGAEEHAGHAVREEQRRAALDLRRAETPLREGEPGSGTVRRGFELDDTGGEIAHDGAGKTVAER
IRAATAGLLEKAGRVGERLRGMADDVWSYATGERGAERARHGLEQAGAEFERAAAPVVTRLNVIEAHREQ
ERAAQHQKALELERSQRQRTYNGPSL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | K4I4Y4 |
Reference
[1] de Toro M et al. (2013) pMdT1, a small ColE1-like plasmid mobilizing a new variant of the aac(6')-Ib-cr gene in Salmonella enterica serovar Typhimurium. J Antimicrob Chemother. 68(6):1277-80. [PMID:23361643]
Auxiliary protein
| ID | 162 | GenBank | YP_006957895 |
| Name | MobB_pMdT1 |
UniProt ID | K4I2Q4 |
| Length | 161 a.a. | PDB ID | _ |
| Note | MobB mobilisation protein | ||
Auxiliary protein sequence
Download Length: 161 a.a. Molecular weight: 18018.59 Da Isoelectric Point: 10.0592
MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESEKRISAAILDHDRKLSSAMSQRTKGM
VRMVSQTWLTIVLVSTLLTASGASILWWQGQQILDNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCV
RVNPEAGRFGEDSSWMILAGK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | K4I2Q4 |
Reference
[1] de Toro M et al. (2013) pMdT1, a small ColE1-like plasmid mobilizing a new variant of the aac(6')-Ib-cr gene in Salmonella enterica serovar Typhimurium. J Antimicrob Chemother. 68(6):1277-80. [PMID:23361643]
| ID | 163 | GenBank | YP_006957896 |
| Name | MobC_pMdT1 |
UniProt ID | K4I175 |
| Length | 107 a.a. | PDB ID | _ |
| Note | MobC mobilisation protein | ||
Auxiliary protein sequence
Download Length: 107 a.a. Molecular weight: 11755.49 Da Isoelectric Point: 7.8963
MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSISPALLRQLAGMGNNLNQIARQVNAG
GGSGHDRVQVVAALMAIDAGLERLRHAVLEKGADDDR
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | K4I175 |
Reference
[1] de Toro M et al. (2013) pMdT1, a small ColE1-like plasmid mobilizing a new variant of the aac(6')-Ib-cr gene in Salmonella enterica serovar Typhimurium. J Antimicrob Chemother. 68(6):1277-80. [PMID:23361643]
Host bacterium
| ID | 107 | GenBank | NC_019133 |
| Plasmid name | pMdT1 | Incompatibility group | Col440II |
| Plasmid size | 5931 bp | Coordinate of oriT [Strand] | 1978..2041 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium |
Cargo genes
| Drug resistance gene | aac(6')-Ib-cr |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |