Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101591 |
| Name | oriT_pS938-KPC-2  |
| Organism | Klebsiella pneumoniae strain S938 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JBAFZQ010000001 (4931..5525 [-], 595 nt) |
| oriT length | 595 nt |
| IRs (inverted repeats) | 569..574, 579..584 (ATGCCC..GGGCAT) 497..503, 508..514 (CCTCCCG..CGGGAGG) 433..438, 442..447 (GTTCGC..GCGAAC) 75..80, 86..91 (TGCTTT..AAAGCA) 69..74, 82..87 (TTACTT..AAGTAA) |
| Location of nic site | 294..295 |
| Conserved sequence flanking the nic site |
TCCTGCATCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 595 nt
>oriT_pS938-KPC-2
TGTTAAATACATTGTAGTTTTGATAAAATCATTAGTATCTGGCATAAAGTTATCATTATCATCTTCTGTTACTTTGCTTTTAAGTAAAGCACTGGCAAGCAATTTCATGCCTTTAGCAACAGTTAAACCAGGCTCATCTGGATAAATAACCTTCAGACATTCAAGTAGATTATCATGCTGTTTTTCTTCTAGTCTGAAATTAATTTGCTTCATAAATCCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGAGTAAAATGCTAGCATTTTGCGGCGTTTGCCCTATCCTGCATCGCTTTGATCTAGCACTAGTCTTGAATTGTGCTTCAGCGTCGAGGAAAAAGCAAAACTGAAGGGCTGTCATGGCTGAAGGTTTCGCTTGTCTACGACCGGAAACATCTCAATGGCTGTGAGCTATGTGGGATAAGGTTCGCTACGCGAACGGTCTGGCAGGGGGCGCAAGCGCTGTCTTGCAGAGTATATAAAAAAGCACCTCCCGCAAACGGGAGGGCTTCGGCGATTCATGACGTGTGAAACTATTCAGGGTCTGGTGTGTCGCCTACCATGCCCTGACGGGCATCACACAACCAG
TGTTAAATACATTGTAGTTTTGATAAAATCATTAGTATCTGGCATAAAGTTATCATTATCATCTTCTGTTACTTTGCTTTTAAGTAAAGCACTGGCAAGCAATTTCATGCCTTTAGCAACAGTTAAACCAGGCTCATCTGGATAAATAACCTTCAGACATTCAAGTAGATTATCATGCTGTTTTTCTTCTAGTCTGAAATTAATTTGCTTCATAAATCCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGAGTAAAATGCTAGCATTTTGCGGCGTTTGCCCTATCCTGCATCGCTTTGATCTAGCACTAGTCTTGAATTGTGCTTCAGCGTCGAGGAAAAAGCAAAACTGAAGGGCTGTCATGGCTGAAGGTTTCGCTTGTCTACGACCGGAAACATCTCAATGGCTGTGAGCTATGTGGGATAAGGTTCGCTACGCGAACGGTCTGGCAGGGGGCGCAAGCGCTGTCTTGCAGAGTATATAAAAAAGCACCTCCCGCAAACGGGAGGGCTTCGGCGATTCATGACGTGTGAAACTATTCAGGGTCTGGTGTGTCGCCTACCATGCCCTGACGGGCATCACACAACCAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1412 | GenBank | WP_044864205 |
| Name | mobP1_V5H45_RS00055_pS938-KPC-2 |
UniProt ID | A0A221ZPJ2 |
| Length | 386 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 386 a.a. Molecular weight: 44352.85 Da Isoelectric Point: 10.6126
>WP_044864205.1 MULTISPECIES: MobP1 family relaxase [Enterobacterales]
MGVSVDKEYRVKRKSSEAGRKSAFAHKVKNGGKNYQRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGQVWKGDEIQEAKEHMVDRANDPQNVMNDKGKENKKVTQNIVFSPPVSAKVKPED
LLESVRKTMHKKYPNHRFVLGYHNDKKDHPHVHVVFRIRDEDGKRTDIRKKDLREIRTGFCEELKLKGYD
VKATHRQQQGLNQSIRDAHSTAPKRQKGVYEVVDVGYDHYQHDKTKPKQHFLKLKTLNKGVEKTYWGADF
GDLTSRENVKKGDLVKLKKLGQKEVKIPALDKHGVQHGWKTVHRNEWKLDNLGVKGIDRTPSSSKELVLN
SAAMLQKQQLQMKQFIQIKQAMLQNEQKMKIGIKLG
MGVSVDKEYRVKRKSSEAGRKSAFAHKVKNGGKNYQRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGQVWKGDEIQEAKEHMVDRANDPQNVMNDKGKENKKVTQNIVFSPPVSAKVKPED
LLESVRKTMHKKYPNHRFVLGYHNDKKDHPHVHVVFRIRDEDGKRTDIRKKDLREIRTGFCEELKLKGYD
VKATHRQQQGLNQSIRDAHSTAPKRQKGVYEVVDVGYDHYQHDKTKPKQHFLKLKTLNKGVEKTYWGADF
GDLTSRENVKKGDLVKLKKLGQKEVKIPALDKHGVQHGWKTVHRNEWKLDNLGVKGIDRTPSSSKELVLN
SAAMLQKQQLQMKQFIQIKQAMLQNEQKMKIGIKLG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A221ZPJ2 |
T4CP
| ID | 1068 | GenBank | WP_060589145 |
| Name | t4cp2_V5H45_RS00115_pS938-KPC-2 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69235.94 Da Isoelectric Point: 7.1493
>WP_060589145.1 type IV secretory system conjugative DNA transfer family protein [Klebsiella pneumoniae]
MSLKLPDKGQWLFIGFVMCLFTYYAGSVAVYFFNGKTPLFIWKNFDSMLLWRLMTESNIRSDIRITAMPA
LLSGLAASVIVPVFIIWQLNKKDFSLYGDAKFASDDDLKKSKLLKWEKENDDDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREVILQNKVFLLDPFNSKTHKFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYAPDWLNEFNLKPIFSI
GSVVDLYSNIDRENVLANREDFEGIAGLDETALFHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDISIYVGVNAEDMSLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMSIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAKKIS
EKLGYTTAKSTGSSKTSGRSTSKSNSESDAQRALVLPQELGTLEFSEEFIILKGENPVKAKKALYYLDSY
FMDRLMLVSPKLAALTSSLNKTKNIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWLFIGFVMCLFTYYAGSVAVYFFNGKTPLFIWKNFDSMLLWRLMTESNIRSDIRITAMPA
LLSGLAASVIVPVFIIWQLNKKDFSLYGDAKFASDDDLKKSKLLKWEKENDDDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREVILQNKVFLLDPFNSKTHKFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYAPDWLNEFNLKPIFSI
GSVVDLYSNIDRENVLANREDFEGIAGLDETALFHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDISIYVGVNAEDMSLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMSIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAKKIS
EKLGYTTAKSTGSSKTSGRSTSKSNSESDAQRALVLPQELGTLEFSEEFIILKGENPVKAKKALYYLDSY
FMDRLMLVSPKLAALTSSLNKTKNIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 8095..18050
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V5H45_RS00025 (V5H45_00025) | 3549..3815 | + | 267 | WP_044715141 | hypothetical protein | - |
| V5H45_RS00030 (V5H45_00030) | 3808..4047 | + | 240 | WP_044715143 | hypothetical protein | - |
| V5H45_RS00035 (V5H45_00035) | 4144..4485 | + | 342 | WP_059347451 | hypothetical protein | - |
| V5H45_RS00040 (V5H45_00040) | 4563..4712 | + | 150 | WP_162852120 | hypothetical protein | - |
| V5H45_RS00045 (V5H45_00045) | 4728..4985 | + | 258 | WP_044715147 | hypothetical protein | - |
| V5H45_RS00050 (V5H45_00050) | 5313..5861 | + | 549 | WP_044715148 | DNA distortion polypeptide 1 | - |
| V5H45_RS00055 (V5H45_00055) | 5864..7024 | + | 1161 | WP_044864205 | MobP1 family relaxase | - |
| V5H45_RS00060 (V5H45_00060) | 7380..7871 | + | 492 | WP_044715152 | transcription termination/antitermination NusG family protein | - |
| V5H45_RS00065 (V5H45_00065) | 8095..8739 | + | 645 | WP_332868031 | lytic transglycosylase domain-containing protein | virB1 |
| V5H45_RS00070 (V5H45_00070) | 8723..9013 | + | 291 | WP_044715156 | TrbC/VirB2 family protein | virB2 |
| V5H45_RS00075 (V5H45_00075) | 9035..11794 | + | 2760 | WP_271048813 | VirB3 family type IV secretion system protein | virb4 |
| V5H45_RS00080 (V5H45_00080) | 11805..12551 | + | 747 | WP_044715162 | type IV secretion system protein | - |
| V5H45_RS00085 (V5H45_00085) | 12561..12818 | + | 258 | WP_044715163 | EexN family lipoprotein | - |
| V5H45_RS00090 (V5H45_00090) | 12830..13885 | + | 1056 | WP_060589144 | type IV secretion system protein | virB6 |
| V5H45_RS00095 (V5H45_00095) | 14125..14853 | + | 729 | WP_044715168 | type IV secretion system protein | virB8 |
| V5H45_RS00100 (V5H45_00100) | 14858..15787 | + | 930 | WP_044715170 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| V5H45_RS00105 (V5H45_00105) | 15784..16995 | + | 1212 | WP_044715172 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| V5H45_RS00110 (V5H45_00110) | 17019..18050 | + | 1032 | WP_060589148 | P-type DNA transfer ATPase VirB11 | virB11 |
| V5H45_RS00115 (V5H45_00115) | 18053..19888 | + | 1836 | WP_060589145 | type IV secretory system conjugative DNA transfer family protein | - |
| V5H45_RS00120 (V5H45_00120) | 19885..20280 | + | 396 | WP_044715177 | cag pathogenicity island Cag12 family protein | - |
| V5H45_RS00125 (V5H45_00125) | 20285..20623 | + | 339 | WP_225622178 | hypothetical protein | - |
| V5H45_RS00130 (V5H45_00130) | 20692..20895 | + | 204 | WP_044715181 | hypothetical protein | - |
| V5H45_RS00135 (V5H45_00135) | 20901..21236 | + | 336 | WP_050886236 | hypothetical protein | - |
| V5H45_RS00140 (V5H45_00140) | 21233..21703 | + | 471 | WP_044715183 | thermonuclease family protein | - |
| V5H45_RS00145 (V5H45_00145) | 21718..22491 | + | 774 | WP_044715185 | hypothetical protein | - |
Host bacterium
| ID | 2035 | GenBank | NZ_JBAFZQ010000001 |
| Plasmid name | pS938-KPC-2 | Incompatibility group | IncX5 |
| Plasmid size | 41872 bp | Coordinate of oriT [Strand] | 4931..5525 [-] |
| Host baterium | Klebsiella pneumoniae strain S938 |
Cargo genes
| Drug resistance gene | blaKPC-2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |