 oriTDB accession number | 100031 |
| Name | oriT_F  |
Sequence Completeness  | intact |
| oriT length | 290 nt |
| oriT sequence | CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAG CACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAACGG TGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAA GAGAAACTAATTTTTCATAACACTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTT GCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT |
| IR (inverted repeat) | [225-232] [235-242] nt (GCAAAAAC..GTTTTTGC) |
| Location of nic site | [251-252] nt |
| Conserved sequence flanking the nic site | GTGGGGTGT|GG |
| Note | _ |
Visualization of oriT structure (The oriT was characterized experimentally) Reference| [1] Frost LS et al (1994) Analysis of the sequence and gene products of the transfer region of the F sex factor. Microbiol Rev. 58(2):162-210. [PMID:7915817] |
| [2] de la Cruz F et al (2010) Conjugative DNA metabolism in Gram-negative bacteria. FEMS Microbiol Rev. 34(1):18-40. [PMID:19919603] |
| ID | 30 |
| Name | TraI_F |
| GenBank accession number | BAA97974 |
| Family | MOBF |
| Length | 1756 aa |
| UniProt ID | P14565 |
| PDB ID | 2Q7T, 2Q7U, 1P4D, 2A0I, 2L8B, 3FLD |
| Pfam | TrwC [PF08751.10], Evalue: 8.10E-75, Aligned region: 10..284 TraI [PF07057.10], Evalue: 7.60E-56, Aligned region: 1434..1556 AAA_30 [PF13604.5], Evalue: 1.60E-34, Aligned region: 968..1160 AAA_19 [PF13245.5], Evalue: 9.70E-09, Aligned region: 973..1108 |
| Note | F TraI has both oriT-specific nicking activity and DNA helicaseactivity |
| Protein sequence [Download] | MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRL PDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEAL ASTRVMTDGQSETVLTGNLVMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKV GKTGFIENVYANQIAFGRLYREKLKEQVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQT IREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQTLKETGFDIRAYRDAADQRAD LRTLTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPENGVIERARAG IDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNMKQDE RLSGELITGRRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQR TGTGSALMAMKDAGVNTYRWQGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQ VSGVREQAILTQAIRSELKTQGVLGLPEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWN PETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRV TGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFTALKLENGWVETPGH SVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI KTRAGETSLETAISHQKSALHTPAQQAIHLALPVVESKKLAFSMVDLLTEAKSFAAEGTG FTELGGEINAQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVMPLMER VPGELMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRV VGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDM ARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELREAV YSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEAQQKAMLKGEA FPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDVREKAGELGKEQVM VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLIS PREAVAEGVTLYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQT REIRPGQEQAEQHIDLAYAITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMK QHVQVYTDNRQGWTDAINNAVQKGTAHDVFEPKPDREVMNAERLFSTARELRDVAAGRAV LRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPLTTDDGNGLRGFSGE GRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNPGAIT GGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP DGKTEQAVREIAGQERDRAAITEREAALPEGVLREPQRVREAVREIARENLLQERLQQME RDMVRDLQKEKTLGGD |
Reference| [1] Frost LS et al (1994) Analysis of the sequence and gene products of the transfer region of the F sex factor. Microbiol Rev. 58(2):162-210. [PMID:7915817] |
| [2] de la Cruz F et al (2010) Conjugative DNA metabolism in Gram-negative bacteria. FEMS Microbiol Rev. 34(1):18-40. [PMID:19919603] |
| # | ID | Name | GenBank | Length | Note |
| 1 | 46 | TraM_F | NP_061450 | 127 aa | _ |
| 2 | 47 | TraY_F | NP_061452 | 131 aa | _ |
| ID | 30 |
| Name | TraD_F |
| SecReT4 accesion number | _ |
| GenBank accession number | BAA97972 |
| Family | TrwB/TraD |
| Length | 717 |
| UniProt ID | P09130 |
| PDB ID | 3D8A |
| Pfam | TrwB_AAD_bind [PF10412.8], Evalue: 3.30E-121, Aligned region: 171..561 TraD_N [PF12615.7], Evalue: 1.80E-29, Aligned region: 31..128 TraG-D_C [PF12696.6], Evalue: 4.90E-19, Aligned region: 419..542 T4SS-DNA_transf [PF02534.13], Evalue: 2.80E-07, Aligned region: 198..510 |
| Note | BAA97972 traD (plasmid) [Escherichia coli K-12]. |
| Protein sequence [Download] | MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWIKISWQTFVNGCIY WWCTTLEGMRDLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCSEQLWSAFVLAAVVAL VICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPII RDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVKSYYDPSIDKILNP LDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRS YSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHN GEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRA FFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSL PDLTCYVTLPGPYPAVKLSLKYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMA SLFEPDVPEVVSGEDVTQAEQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQ QLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF |
Reference| [1] Frost LS et al (1994) Conjugative DNA metabolism in Gram-negative bacteria. Microbiol Rev. 58(2):162-210. [PMID:7915817] |
| [2] de la Cruz F et al (2010) Conjugative DNA metabolism in Gram-negative bacteria. FEMS Microbiol Rev. 34(1):18-40. [PMID:19919603] |
| [3] Cabezón E et al (1994) Conjugative DNA metabolism in Gram-negative bacteria. J Bacteriol. 176(14):4455-8. [PMID:8021231] |
| ID | 30 |
| Plasmid name | F plasmid |
| GenBank accession number | NC_002483.1 |
| Incompatibility group | IncF (IncFI) |
| Genome size | 99159 bp |
| Coordinate of oriT [Strand] | 66118..66407 [-] |
| Drug resistance | _ |
| Heavy-metal resistance | _ |
| Virulence factor | _ |
| Xenobiotic degradation | _ |
| Host bacterium [NCBI Taxonomy ID] | Escherichia coli K-12 [83333] |
Reference