Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121172 |
| Name | oriT_LL1|unnamed1  |
| Organism | Methylomonas sp. LL1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP064652 (14781..14856 [-], 76 nt) |
| oriT length | 76 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | 62..63 |
| Conserved sequence flanking the nic site |
TCCTGCCCCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 76 nt
>oriT_LL1|unnamed1
CGAATAAAGGGAAGTGAAGTACATGTGTCGGCTTCGCCGGTACATGTACTTCACATATCCTGCCCCGACCATACGG
CGAATAAAGGGAAGTGAAGTACATGTGTCGGCTTCGCCGGTACATGTACTTCACATATCCTGCCCCGACCATACGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13366 | GenBank | WP_196433904 |
| Name | traI_IVG45_RS00095_LL1|unnamed1 |
UniProt ID | _ |
| Length | 725 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 725 a.a. Molecular weight: 79694.29 Da Isoelectric Point: 10.2528
>WP_196433904.1 TraI/MobA(P) family conjugative relaxase [Methylomonas sp. LL1]
MIAKHVPMKSIKKSDFDALVSYISDDQDKKERVEYTSVTNCQSEDLTAAIIEVTAVQGMNTRAESDKTYH
LILSFREGERPSNEVLKEIERSICEGLGYGEHQRVSAVHCDTDNLHMHIAINKIHPTRLTIHNSYNDHKV
LGKLCEAIEIKYGLERDNHQSNKVASENRAADMERHAGVESLLSWVRRECLDQLHAAASWDEFHKVLREH
GLTLQERGNGFVIADHDGLMVKASTVARDLSKGKLEGRLGVFESLSKDSGVASQSTGRGKVYEPRPVGSR
LDTTLLFARYKNEQANQRALRAQQWKSVREERARKIDAAKRAAKLKRAVIKLSTKSRIEKKILYALASKS
LLADIQHANQQCQAERQAIFERHRPQQWADWLRRKASSGDVDALNALRARDAAQGLSGDTIGGIGGARIR
HGVKVKLDGVTKKGTIIYRAGSSAIRDDGDKLKVSRGSSADGLEVALRMAMERYGSTITVSGSAEFKARI
VRTAVDAGIPLVFADPVLERQRRSLLNNTTVNRNEQQSERGRGIGSGVSGIGSGVHNANGAGRWYGFFGA
INKPNVSGVGRRPPPESRNRLRDLSSLAMVRFATGVEMLLSGNVSGGVEQQGAERNNALRRSVSGAGLIV
SVEADKYIAEREEKRLRGINVPMHRRYSEGDAGTLSFAGLRRVDGTALLLLKRDDVVCVLPVDEPMAARL
QRLSIGDAVSVGESGSITLAKGRSR
MIAKHVPMKSIKKSDFDALVSYISDDQDKKERVEYTSVTNCQSEDLTAAIIEVTAVQGMNTRAESDKTYH
LILSFREGERPSNEVLKEIERSICEGLGYGEHQRVSAVHCDTDNLHMHIAINKIHPTRLTIHNSYNDHKV
LGKLCEAIEIKYGLERDNHQSNKVASENRAADMERHAGVESLLSWVRRECLDQLHAAASWDEFHKVLREH
GLTLQERGNGFVIADHDGLMVKASTVARDLSKGKLEGRLGVFESLSKDSGVASQSTGRGKVYEPRPVGSR
LDTTLLFARYKNEQANQRALRAQQWKSVREERARKIDAAKRAAKLKRAVIKLSTKSRIEKKILYALASKS
LLADIQHANQQCQAERQAIFERHRPQQWADWLRRKASSGDVDALNALRARDAAQGLSGDTIGGIGGARIR
HGVKVKLDGVTKKGTIIYRAGSSAIRDDGDKLKVSRGSSADGLEVALRMAMERYGSTITVSGSAEFKARI
VRTAVDAGIPLVFADPVLERQRRSLLNNTTVNRNEQQSERGRGIGSGVSGIGSGVHNANGAGRWYGFFGA
INKPNVSGVGRRPPPESRNRLRDLSSLAMVRFATGVEMLLSGNVSGGVEQQGAERNNALRRSVSGAGLIV
SVEADKYIAEREEKRLRGINVPMHRRYSEGDAGTLSFAGLRRVDGTALLLLKRDDVVCVLPVDEPMAARL
QRLSIGDAVSVGESGSITLAKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 15664 | GenBank | WP_196433905 |
| Name | t4cp2_IVG45_RS00100_LL1|unnamed1 |
UniProt ID | _ |
| Length | 636 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 636 a.a. Molecular weight: 70574.36 Da Isoelectric Point: 9.4044
>WP_196433905.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Methylomonas]
MKDKFNNAVGPQIRAGKPRVGIVIPALAVTSLVAGLQSATQFFADEFNYQSTLGPHYNHIYAPWAVLRWS
SDWYGLYQDSFMKAGSVGMSVTAVGLLGLVVAKMVIANSSKVNPYLHGSARWANKKDIEEAGLLPRSAGL
FTRLFGKRPEPVSGVYVGAWVDKKGVTRYLRHNGPEHVLCYAPTRSGKGVGLVIPTLLSWERSAVVTDLK
GELWALTSGWRKKYARNKVLRFEPAALQGSVCWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLETHWQ
KTAQALLVGVIMHVLYKARDEGGEASLPIVDAIMSDPNRDIAELWVEMTTYGHAFGKNHPVVGSAARDMM
DRPPEEAGSVLSTAKSYLALYRDPVVQRNVRKSEFRIKDLMNFDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMEFENGRPKAHYKHRMLMMLDEFPSLGRLEILQESLAFVAGYGIKCYLICQDINQLKSRET
GYGADESITSNCHVQNAYPPNRVETADHLSKLTGQTTVAKEQITTSGRRTSALLAQVSRTIQEVQRPLLT
PDECLRMPGPVKGADGLIEKPGDMVIYAAGYPAIYGVQPLYFKDPVFQARASIPPPKVSDKLLKTHEARR
DEAIKL
MKDKFNNAVGPQIRAGKPRVGIVIPALAVTSLVAGLQSATQFFADEFNYQSTLGPHYNHIYAPWAVLRWS
SDWYGLYQDSFMKAGSVGMSVTAVGLLGLVVAKMVIANSSKVNPYLHGSARWANKKDIEEAGLLPRSAGL
FTRLFGKRPEPVSGVYVGAWVDKKGVTRYLRHNGPEHVLCYAPTRSGKGVGLVIPTLLSWERSAVVTDLK
GELWALTSGWRKKYARNKVLRFEPAALQGSVCWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLETHWQ
KTAQALLVGVIMHVLYKARDEGGEASLPIVDAIMSDPNRDIAELWVEMTTYGHAFGKNHPVVGSAARDMM
DRPPEEAGSVLSTAKSYLALYRDPVVQRNVRKSEFRIKDLMNFDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMEFENGRPKAHYKHRMLMMLDEFPSLGRLEILQESLAFVAGYGIKCYLICQDINQLKSRET
GYGADESITSNCHVQNAYPPNRVETADHLSKLTGQTTVAKEQITTSGRRTSALLAQVSRTIQEVQRPLLT
PDECLRMPGPVKGADGLIEKPGDMVIYAAGYPAIYGVQPLYFKDPVFQARASIPPPKVSDKLLKTHEARR
DEAIKL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 110148..120553
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IVG45_RS00455 (IVG45_00455) | 106174..107616 | + | 1443 | WP_196433871 | hypothetical protein | - |
| IVG45_RS00460 (IVG45_00460) | 107849..108058 | - | 210 | WP_196433872 | cold-shock protein | - |
| IVG45_RS00465 (IVG45_00465) | 108210..108698 | - | 489 | WP_230874543 | OmpA family protein | - |
| IVG45_RS00470 (IVG45_00470) | 108709..109407 | - | 699 | WP_196433873 | TraX family protein | - |
| IVG45_RS00475 (IVG45_00475) | 109444..110022 | - | 579 | WP_196433874 | hypothetical protein | - |
| IVG45_RS00480 (IVG45_00480) | 110148..111542 | - | 1395 | WP_196433875 | P-type conjugative transfer protein TrbL | virB6 |
| IVG45_RS00485 (IVG45_00485) | 111539..111835 | - | 297 | WP_196433876 | entry exclusion lipoprotein TrbK | - |
| IVG45_RS00490 (IVG45_00490) | 111842..112645 | - | 804 | WP_196433877 | P-type conjugative transfer protein TrbJ | virB5 |
| IVG45_RS00495 (IVG45_00495) | 112669..114072 | - | 1404 | WP_196433878 | TrbI/VirB10 family protein | virB10 |
| IVG45_RS00500 (IVG45_00500) | 114077..114514 | - | 438 | WP_196433879 | hypothetical protein | - |
| IVG45_RS00505 (IVG45_00505) | 114516..115418 | - | 903 | WP_196433880 | P-type conjugative transfer protein TrbG | virB9 |
| IVG45_RS00510 (IVG45_00510) | 115436..116188 | - | 753 | WP_196433881 | VirB8/TrbF family protein | virB8 |
| IVG45_RS00515 (IVG45_00515) | 116185..118746 | - | 2562 | WP_196433929 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| IVG45_RS00520 (IVG45_00520) | 118746..119081 | - | 336 | WP_196433882 | conjugal transfer protein TrbD | virB3 |
| IVG45_RS22490 | 119258..119581 | - | 324 | Protein_102 | TrbC/VirB2 family protein | - |
| IVG45_RS00530 (IVG45_00530) | 119591..120553 | - | 963 | WP_196433884 | P-type conjugative transfer ATPase TrbB | virB11 |
| IVG45_RS00535 (IVG45_00535) | 120920..121849 | + | 930 | WP_196433885 | hypothetical protein | - |
| IVG45_RS00540 (IVG45_00540) | 121830..122693 | + | 864 | WP_196433886 | hypothetical protein | - |
| IVG45_RS00545 (IVG45_00545) | 122690..124144 | + | 1455 | WP_196433887 | sensor histidine kinase KdpD | - |
| IVG45_RS00550 (IVG45_00550) | 124113..125051 | - | 939 | WP_196433888 | response regulator | - |
Host bacterium
| ID | 21600 | GenBank | NZ_CP064652 |
| Plasmid name | LL1|unnamed1 | Incompatibility group | - |
| Plasmid size | 125316 bp | Coordinate of oriT [Strand] | 14781..14856 [-] |
| Host baterium | Methylomonas sp. LL1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | czcA |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |