Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101222
Name   oriT_repA(dmsm701b-repB(R1701)) in_silico
Organism   Enterobacter cloacae subsp. cloacae strain MDCL 101
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAVLSI010000030 (16657..16738 [+], 82 nt)
oriT length   82 nt
IRs (inverted repeats)      27..32, 35..40  (GCCACC..GGTGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 82 nt

>oriT_repA(dmsm701b-repB(R1701))
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1203 GenBank   WP_064357930
Name   traI_RI507_RS21595_repA(dmsm701b-repB(R1701)) insolico UniProt ID   _
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74304.29 Da        Isoelectric Point: 8.8672

>WP_064357930.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MNAIIPPKRRDKKSSFVQLVAYVSVRDDVPLKDELKEDQRFQRPSRSRQAIFDRLVDYMNRSEGTITEQI
TDMSPEGDVRCSVDGVICQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKY
SLKRLGMEENQYVAGIHRDTDNLHVHVAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPSMTLSRLEPALGTFVPSPRSAEMVKQSVQTPYSDKLHVRDRGA
RAKRRQARADARIDLRERYGKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASENI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGCFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDERYYD
DVRNNDDSSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-310)


  Protein structure



No available structure.




T4CP

ID   812 GenBank   WP_064357960
Name   trbC_RI507_RS21745_repA(dmsm701b-repB(R1701)) insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 82695.78 Da        Isoelectric Point: 6.0387

>WP_064357960.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDNIRHAPDSMIIQDGVLYAIADEAMYFDEVSPVPPDTVRRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQVDGFVY

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(439-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26854..48579

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RI507_RS21610 (RI507_21615) 22000..22494 - 495 WP_064357935 molybdopterin-dependent oxidoreductase -
RI507_RS21615 (RI507_21620) 22487..23020 - 534 WP_318758737 hypothetical protein -
RI507_RS21620 (RI507_21625) 23001..23417 - 417 WP_318758738 hypothetical protein -
RI507_RS21625 (RI507_21630) 23477..24319 - 843 WP_032440572 helix-turn-helix domain-containing protein -
RI507_RS21630 (RI507_21635) 24929..25156 + 228 WP_032440573 hypothetical protein -
RI507_RS21635 25270..25875 + 606 WP_134680973 hypothetical protein -
RI507_RS21640 (RI507_21645) 25888..26367 + 480 WP_064357937 lytic transglycosylase domain-containing protein -
RI507_RS21645 (RI507_21650) 26393..26857 + 465 WP_227526296 DotD/TraH family lipoprotein -
RI507_RS21650 (RI507_21655) 26854..27672 + 819 WP_064357938 type IV secretory system conjugative DNA transfer family protein traI
RI507_RS21655 (RI507_21660) 27650..28837 + 1188 WP_081042498 plasmid transfer ATPase TraJ virB11
RI507_RS21660 (RI507_21665) 28834..29100 + 267 WP_032440577 IcmT/TraK family protein traK
RI507_RS21665 (RI507_21670) 29118..32333 + 3216 WP_064357941 LPD7 domain-containing protein -
RI507_RS21670 (RI507_21675) 32367..32720 + 354 WP_064357942 hypothetical protein traL
RI507_RS21675 (RI507_21680) 32794..33462 + 669 WP_196548568 DotI/IcmL/TraM family protein traM
RI507_RS21680 (RI507_21685) 33473..34576 + 1104 WP_081042499 DotH/IcmK family type IV secretion protein traN
RI507_RS21685 (RI507_21690) 34580..35908 + 1329 WP_064357943 conjugal transfer protein TraO traO
RI507_RS21690 (RI507_21695) 35915..36634 + 720 WP_099119323 conjugal transfer protein TraP traP
RI507_RS21695 (RI507_21700) 36644..37177 + 534 WP_064357947 conjugal transfer protein TraQ traQ
RI507_RS21700 (RI507_21705) 37233..37634 + 402 WP_032440588 DUF6750 family protein traR
RI507_RS21705 (RI507_21710) 37678..38241 + 564 WP_064357949 hypothetical protein traT
RI507_RS21710 (RI507_21715) 38251..41298 + 3048 WP_064357951 hypothetical protein traU
RI507_RS21715 (RI507_21720) 41308..42504 + 1197 WP_099119324 conjugal transfer protein TraW traW
RI507_RS21720 (RI507_21725) 42501..43082 + 582 WP_064357954 conjugal transfer protein TraX -
RI507_RS21725 (RI507_21730) 43124..45268 + 2145 WP_064357955 DotA/TraY family protein traY
RI507_RS21730 (RI507_21735) 45334..45957 + 624 WP_064357957 plasmid IncI1-type surface exclusion protein ExcA -
RI507_RS21735 (RI507_21740) 46059..47477 + 1419 WP_071887238 hypothetical protein trbA
RI507_RS21740 (RI507_21745) 47488..48579 + 1092 WP_064357959 thioredoxin fold domain-containing protein trbB
RI507_RS21745 (RI507_21750) 48581..50773 + 2193 WP_064357960 F-type conjugative transfer protein TrbC -
RI507_RS21750 (RI507_21755) 50819..51352 + 534 WP_096807525 phospholipase D family protein -
RI507_RS21755 (RI507_21760) 51364..51615 + 252 WP_064357964 hypothetical protein -
RI507_RS21760 (RI507_21765) 52120..52821 + 702 WP_174235733 RepA family replication protein -

Host bacterium

ID   1666 GenBank   NZ_JAVLSI010000030
Plasmid name   repA(dmsm701b-repB(R1701)) Incompatibility group   IncFII
Plasmid size   55427 bp Coordinate of oriT [Strand]   16657..16738 [+]
Host baterium   Enterobacter cloacae subsp. cloacae strain MDCL 101

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -