 oriTDB accession number | 100082 |
| Name | oriT_ColIb-P9  |
Sequence Completeness  | intact |
| oriT length | 110 nt |
| oriT sequence | TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATA GCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG |
| IR (inverted repeat) | IR1: [24-31] [35-42] nt (GTCGGGGC..GCCCTGAC) IR2: [49-65] [72-88] nt (GCAATTGTAATAGCGTC..GACGGTATTACAATTGC) |
| Location of nic site | [96-97] nt |
| Conserved sequence flanking the nic site | CATCCTG|T |
| Note | possible oriT region deduced from sequence homology with plasmid R64 |
Visualization of oriT structure Reference| [1] Wilkins BM et al (2000) DNA-independent transport of plasmid primase protein between bacteria by the I1 conjugation system. Mol Microbiol . 38(3):650-7. [PMID:11069687] |
| ID | 77 |
| Name | NikB_ColIb-P9 |
| GenBank accession number | NP_052501 |
| Family | MOBP |
| Length | 899 aa |
| UniProt ID | Q9R2J7 |
| PDB ID | _ |
| Pfam | Relaxase [PF03432.13], Evalue: 1.30E-64, Aligned region: 47..315 |
| Note | relaxase |
| Protein sequence [Download] | MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRL RNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHY ILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYL NRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQTF REYIAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFG PSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHL GERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKREL FSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHE QTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDP MLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYDDP ALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVS QLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGE FVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG |
Reference| [1] Wilkins BM et al (2000) DNA-independent transport of plasmid primase protein between bacteria by the I1 conjugation system. Mol Microbiol . 38(3):650-7. [PMID:11069687] |
| # | ID | Name | GenBank | Length | Note |
| 1 | 111 | NikA_ColIb-P9 | NP_052500 | 110 aa | relaxosome component |
| ID | 77 |
| Name | TrbC_ColIb-P9 |
| SecReT4 accesion number | _ |
| GenBank accession number | NP_052502 |
| Family | VirD4/TraG |
| Length | 763 |
| UniProt ID | Q7DJX5 |
| PDB ID | _ |
| Pfam | |
| Note | Type IV Secretion System Coupling Protein |
| Protein sequence [Download] | MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITML VFSLQRWRCPLRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQR VRDIGRELWLSMDDLTRHIMFFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTAR TIWYLARRFGREDDVEVINFMNGGKSRSEIILSGEKTRPQSNTWNPFCYSTEAFTAETMQ SMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSLQMLREHMTLEGMAKLYCRGL DDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSETFSTFTEAFG DIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQ TTATNTATLMQNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDS PQISILMESKINVQELIELHPGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISV DAPRLDRLRRLVPRTTQRRIPSPENVSAIIGVLTAKPSRKRRKIRTEPHTIVDTFQQRIA GRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERRIRYITLNRPELPETKEENQI SVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY |
Reference| [1] Ding Z et al (2003) DNA-independent transport of plasmid primase protein between bacteria by the I1 conjugation system. Trends Microbiol. 11(11):527-35. [PMID:14607070] |
| ID | 77 |
| Plasmid name | ColIb-P9 |
| GenBank accession number | NC_002122.1 |
| Incompatibility group | IncI1 |
| Genome size | 93399 bp |
| Coordinate of oriT [Strand] | 39622..39731 [-] |
| Drug resistance | _ |
| Heavy-metal resistance | _ |
| Virulence factor | _ |
| Xenobiotic degradation | _ |
| Host bacterium [NCBI Taxonomy ID] | Shigella sonnei [624] |
Reference