Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101611 |
| Name | oriT_pJNP997-2  |
| Organism | Klebsiella pneumoniae strain JNP997 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JBAFXG010000218 (4046..4169 [-], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 92..99, 113..120 (ATAATGTA..TACATTAT) 90..95, 107..112 (AAATAA..TTATTT) 39..46, 49..56 (GCAAAAAC..GTTTTTGC) 3..10, 15..22 (TTGGTGGT..ACCACCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 124 nt
>oriT_pJNP997-2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Auxiliary protein
| ID | 557 | GenBank | WP_001254388 |
| Name | WP_001254388_pJNP997-2 |
UniProt ID | W9A0Z2 |
| Length | 75 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 75 a.a. Molecular weight: 9072.20 Da Isoelectric Point: 10.2071
>WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | W9A0Z2 |
| ID | 558 | GenBank | WP_001151562 |
| Name | WP_001151562_pJNP997-2 |
UniProt ID | A0A7I0KNG1 |
| Length | 127 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 127 a.a. Molecular weight: 14420.36 Da Isoelectric Point: 4.8624
>WP_001151562.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A7I0KNG1 |
T4CP
| ID | 1085 | GenBank | WP_146620617 |
| Name | traD_V7R74_RS30560_pJNP997-2 |
UniProt ID | _ |
| Length | 789 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 789 a.a. Molecular weight: 89922.02 Da Isoelectric Point: 5.1644
>WP_146620617.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSS
VINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREE
VNINVHRERGEDVEPGDDF
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSS
VINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREE
VNINVHRERGEDVEPGDDF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 1086 | GenBank | WP_000069778 |
| Name | traC_V7R74_RS30660_pJNP997-2 |
UniProt ID | _ |
| Length | 876 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 876 a.a. Molecular weight: 99300.06 Da Isoelectric Point: 6.3461
>WP_000069778.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 154423..176505
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V7R74_RS30560 | 154423..156792 | - | 2370 | WP_146620617 | type IV conjugative transfer system coupling protein TraD | prgC |
| V7R74_RS30565 | 156843..157580 | - | 738 | WP_000199901 | hypothetical protein | - |
| V7R74_RS30570 | 157783..158514 | - | 732 | WP_000782451 | conjugal transfer complement resistance protein TraT | - |
| V7R74_RS30575 | 158563..159048 | - | 486 | WP_000605869 | hypothetical protein | - |
| V7R74_RS30580 | 159064..161886 | - | 2823 | WP_001007080 | conjugal transfer mating-pair stabilization protein TraG | traG |
| V7R74_RS30585 | 161883..163265 | - | 1383 | WP_001309243 | conjugal transfer pilus assembly protein TraH | traH |
| V7R74_RS30590 | 163243..163635 | - | 393 | WP_000660700 | F-type conjugal transfer protein TrbF | - |
| V7R74_RS30595 | 163616..163963 | - | 348 | WP_001309242 | P-type conjugative transfer protein TrbJ | - |
| V7R74_RS30600 | 163893..164438 | - | 546 | WP_000059830 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| V7R74_RS30605 | 164425..164709 | - | 285 | WP_000624107 | type-F conjugative transfer system pilin chaperone TraQ | - |
| V7R74_RS30610 | 164790..165125 | + | 336 | WP_000736414 | hypothetical protein | - |
| V7R74_RS30615 | 165106..165447 | - | 342 | WP_001298557 | conjugal transfer protein TrbA | - |
| V7R74_RS30620 | 165461..166210 | - | 750 | WP_001323331 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| V7R74_RS30625 | 166197..166454 | - | 258 | WP_000864314 | conjugal transfer protein TrbE | - |
| V7R74_RS30630 | 166481..168331 | - | 1851 | WP_000821859 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| V7R74_RS30635 | 168328..168966 | - | 639 | WP_001080251 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| V7R74_RS30640 | 168975..169280 | - | 306 | WP_000224418 | hypothetical protein | - |
| V7R74_RS30645 | 169310..170302 | - | 993 | WP_000830838 | conjugal transfer pilus assembly protein TraU | traU |
| V7R74_RS30650 | 170299..170931 | - | 633 | WP_001203736 | type-F conjugative transfer system protein TraW | traW |
| V7R74_RS30655 | 170928..171314 | - | 387 | WP_000214082 | type-F conjugative transfer system protein TrbI | - |
| V7R74_RS30660 | 171311..173941 | - | 2631 | WP_000069778 | type IV secretion system protein TraC | virb4 |
| V7R74_RS30665 | 174067..174280 | - | 214 | Protein_214 | hypothetical protein | - |
| V7R74_RS30670 | 174308..174526 | - | 219 | WP_000556746 | hypothetical protein | - |
| V7R74_RS30675 | 174606..175079 | - | 474 | WP_000549566 | hypothetical protein | - |
| V7R74_RS30680 | 175072..175293 | - | 222 | WP_001278694 | conjugal transfer protein TraR | - |
| V7R74_RS30685 | 175428..175943 | - | 516 | WP_000809889 | type IV conjugative transfer system lipoprotein TraV | traV |
| V7R74_RS30690 | 175940..176192 | - | 253 | Protein_219 | conjugal transfer protein TrbG | - |
| V7R74_RS30695 | 176185..176505 | - | 321 | WP_001057275 | conjugal transfer protein TrbD | virb4 |
| V7R74_RS30700 | 176492..177082 | - | 591 | WP_000002787 | conjugal transfer pilus-stabilizing protein TraP | - |
Host bacterium
| ID | 2055 | GenBank | NZ_JBAFXG010000218 |
| Plasmid name | pJNP997-2 | Incompatibility group | IncFIB |
| Plasmid size | 178294 bp | Coordinate of oriT [Strand] | 4046..4169 [-] |
| Host baterium | Klebsiella pneumoniae strain JNP997 |
Cargo genes
| Drug resistance gene | aadA5, sul1, mph(A), sul2, aph(3'')-Ib, aph(6)-Id, tet(A), blaTEM-1B, aac(3)-IId |
| Virulence gene | senB |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |