Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113902 |
| Name | oriT_pMRVIM1012  |
| Organism | Citrobacter freundii strain MRSN12115 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_KP975075 (42124..42228 [-], 105 nt) |
| oriT length | 105 nt |
| IRs (inverted repeats) | 32..37, 40..45 (GCCGGC..GCCGGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 105 nt
>oriT_pMRVIM1012
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8927 | GenBank | WP_004206924 |
| Name | traI_HTE84_RS00190_pMRVIM1012 |
UniProt ID | A0A2V4FJ40 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75087.84 Da Isoelectric Point: 10.0285
>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A2V4FJ40 |
T4CP
| ID | 10366 | GenBank | WP_004206885 |
| Name | t4cp2_HTE84_RS00445_pMRVIM1012 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79538.91 Da Isoelectric Point: 4.8317
>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 15160..39326
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTE84_RS00055 | 11143..11676 | + | 534 | Protein_10 | IS110-like element IS4321 family transposase | - |
| HTE84_RS00060 | 12848..13915 | - | 1068 | WP_020316718 | plasmid replication initiator RepA | - |
| HTE84_RS00460 | 13900..13950 | - | 51 | WP_031942489 | IncL/M-type plasmid replication leader peptide RepB | - |
| HTE84_RS00065 | 14200..14430 | - | 231 | WP_004187496 | IncL/M type plasmid replication protein RepC | - |
| HTE84_RS00070 | 14504..15157 | - | 654 | WP_004206935 | hypothetical protein | - |
| HTE84_RS00075 | 15160..17340 | - | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| HTE84_RS00080 | 17333..17983 | - | 651 | WP_004187488 | hypothetical protein | - |
| HTE84_RS00085 | 18205..19065 | - | 861 | WP_000027057 | broad-spectrum class A beta-lactamase TEM-1 | - |
| HTE84_RS00095 | 19248..19846 | - | 599 | Protein_18 | recombinase family protein | - |
| HTE84_RS00100 | 19975..22956 | + | 2982 | Protein_19 | Tn3 family transposase | - |
| HTE84_RS00105 | 22986..24125 | - | 1140 | WP_254150786 | conjugal transfer protein TraW | traW |
| HTE84_RS00110 | 24155..27205 | - | 3051 | WP_011154474 | conjugative transfer protein | traU |
| HTE84_RS00115 | 27202..27696 | - | 495 | WP_004187480 | hypothetical protein | - |
| HTE84_RS00120 | 27742..28131 | - | 390 | WP_011154472 | DUF6750 family protein | traR |
| HTE84_RS00125 | 28148..28678 | - | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| HTE84_RS00130 | 28702..29406 | - | 705 | WP_004206933 | conjugal transfer protein TraP | traP |
| HTE84_RS00135 | 29418..30767 | - | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| HTE84_RS00140 | 30779..31930 | - | 1152 | WP_015062843 | DotH/IcmK family type IV secretion protein | traN |
| HTE84_RS00145 | 31939..32721 | - | 783 | WP_004206929 | DotI/IcmL family type IV secretion protein | traM |
| HTE84_RS00150 | 32720..33130 | + | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| HTE84_RS00155 | 33117..33314 | + | 198 | WP_004187464 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| HTE84_RS00160 | 33315..33869 | - | 555 | WP_011154467 | hypothetical protein | traL |
| HTE84_RS00450 | 33793..37098 | - | 3306 | WP_219818010 | LPD7 domain-containing protein | - |
| HTE84_RS00170 | 37123..37383 | - | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| HTE84_RS00175 | 37373..38536 | - | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| HTE84_RS00180 | 38547..39326 | - | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| HTE84_RS00185 | 39323..39823 | - | 501 | WP_004206925 | DotD/TraH family lipoprotein | - |
| HTE84_RS00190 | 39837..41816 | - | 1980 | WP_004206924 | TraI/MobA(P) family conjugative relaxase | - |
| HTE84_RS00195 | 41803..42120 | - | 318 | WP_004206923 | plasmid mobilization protein MobA | - |
| HTE84_RS00200 | 42396..42761 | + | 366 | WP_004206922 | hypothetical protein | - |
| HTE84_RS00205 | 43262..43798 | - | 537 | WP_004206920 | hypothetical protein | - |
| HTE84_RS00210 | 43931..44242 | - | 312 | WP_004187333 | hypothetical protein | - |
Host bacterium
| ID | 14337 | GenBank | NZ_KP975075 |
| Plasmid name | pMRVIM1012 | Incompatibility group | IncL/M |
| Plasmid size | 72892 bp | Coordinate of oriT [Strand] | 42124..42228 [-] |
| Host baterium | Citrobacter freundii strain MRSN12115 |
Cargo genes
| Drug resistance gene | sul1, qacE, blaVIM-4, blaTEM-1A |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |