Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120771
Name   oriT_pLEC-7c0d in_silico
Organism   Leclercia sp. LSNIH3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP026391 (185022..185305 [+], 284 nt)
oriT length   284 nt
IRs (inverted repeats)      183..188, 190..195  (AAAAGT..ACTTTT)
 45..50, 55..60  (TTTTAA..TTAAAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 284 nt

>oriT_pLEC-7c0d
GTTATTGCCGCTTAATGCCGATAACGATTCGGGCTTTGCTATTTTTTTAAGCGATTAAAATTTCGTTAGCAAGCGCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTCAAAAAGTGTTACAAGTAAGGCCAATGGATGAATGGTTAGTTTTAAGACTCAAATAGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCATTCAAAAACCAAACTTTAATTTCATGTAGAAGATTAGTACAATTGTATTGACGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13099 GenBank   WP_223203175
Name   mobH_C3F35_RS25730_pLEC-7c0d insolico UniProt ID   _
Length   988 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 988 a.a.        Molecular weight: 110156.87 Da        Isoelectric Point: 4.5476

>WP_223203175.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MAELMMKDVSSLSPFAQIIGDQKYTVPDHPNLEVLKFIEYPTRPAGIQTFNEQSILSLYRDKLHSISMML
AISDGDIREDAFTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLLSHSLEVAMISLKNANHSELRPIG
YQDEEVIRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLNETLTWAPSSQSLLDWARENNVVEYEIHWRKR
IHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDGNDFLSKCVRTSDYYSTGTDLNVL
RDPIMGLRSNDAAARAIGTIKHNFTSININNYKSKPMHIIIVNGEVYLNENAFLDFVLSDFAAHKFNFPQ
GDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNGIGKLEFYNLLKLRWIGLIFDSYK
IPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVSDAIEDTPQYGLKLVNGPDADSVN
GKSSENTEAITESVEAAGTDKATDIIDPQVTTPTDTAGTGGLDEKERVEEHEEQSQMRLVEQLHEMLLSA
PLPHNAVINIDSVPYLNLDAAIALIPGIDEAAFCDGPFFQLTYRDGSLDGMWIVRDVNNLRLIQLGDNCA
GIQVSTSEPRTTSTLKSLFDTSMYQPLDIPESPSLNEAVSPPQTPLDLPPARLNTPQAVEANSVAEQINA
HSEPETVTASEYEQYGHLLEETLDSDSEAYSDFIVADNSVVEPPQPEAKNSDVAEFHDETDQVVAPGKLN
DPEDTREPPAPNTTGKEVILTSPVSSQDPIKSEPAGEKANHLSPALARLFAVNTQAEKKHENPPVTTPVK
EAFNRSNSATVQAPIAVDQPGAEEKETLEDFTLLSGGEVTELEYVEIATMLHHILTKLSGSFKRKRKNRF
MVLTQNTFFLTQSCVEKYGTQLNAPELFNQLPQYQVTSGAIVNTKCFAFNMPTLVAASDRAKVDIELIIN
TLKDVGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(83-278)


  Protein structure



No available structure.




T4CP

ID   15375 GenBank   WP_004883099
Name   trbE_C3F35_RS24730_pLEC-7c0d insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 89531.64 Da        Isoelectric Point: 5.2838

>WP_004883099.1 MULTISPECIES: conjugal transfer protein TrbE [Pseudomonadota]
MLNLAEYRQRPALLADWLPWAGLIAPGVVLNKDGSFQRTARFRGPDLDSATQGELIATTARLNNALRRLG
SGWALFVEAERQSAADYPHSDFPEPLSWLVDEERRAAFEESGNHYESSYHLTLAYLPPEESRARAAKLLY
EHAPGDGVDWRGRLDAFLAETDRVFDLLDGVMPEIVWLDDAATLTYLHATVSTRRYRLAVPEVPFHLDAL
LADSALVGGLAPMLGDQHLRVVSVRGFPTSTWPGLLDDLNRLGFAYRWSTRFLCLDKAEAEKELGRLRRQ
WFAKRKNVIALLRETIFQQESPLVDTDASNKAADADAALQELGSDQVAFGYLTATVTVFDDDPAVADEKL
RMVERVIQGRGFVTIPETLNAVDAWLSSIPGNAYANVRQPIVSTLNLAHMMPVSAVWAGPEKNAHLDGPP
LIVTRTDGATPFRLVTHIGDVGHTLVAGPTGMGKSVLLAMLALQFRRYGGSRIFAFDMGRSMRATVLGLG
GEHYDLGADGAIAFQPLARIDSEGYRTWAAEWIEGRLLHEGVTVGPDEKAAIWSALGSLAGAPVEQRTMT
GLSVLLQSNALRQALSPYVLGGAHGKLLDADRDRLGSGDVQGFEMEELMHSPAAVQAVLRYLFARFDARF
DGAPTLLILDEAWLFLDEPSFAARIRQWLKTLRKKNVSVIFATQSLADIKDSTIAPAIIESCASRIFLPN
PQATEPQIRTVYEGFGLNSRQIEIVATAQPKRDYYYQSRLGNRLFDLDLGPAALAFSGASTPQDQRDIDR
VLTQAGAPGFAGAWLRHRGLDWAADLLPSSPSAASFLATQPLEISP

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(571-726)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(187-388)

  Protein structure



No available structure.



ID   15376 GenBank   WP_004883083
Name   t4cp2_C3F35_RS24755_pLEC-7c0d insolico UniProt ID   _
Length   671 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 671 a.a.        Molecular weight: 73455.71 Da        Isoelectric Point: 6.5506

>WP_004883083.1 MULTISPECIES: conjugal transfer protein TraG [Pseudomonadota]
MQGTNVLFGQIAVVFGIVIAGVWGATQWTAAALGYQVRLGSPWFDFLGTPIYLPWKLFEWWFFFDAYAPR
VFDTGGAIAGGSGLLAVVVAVCMSIWRSRQSRLVTTYGSARWASTEDIRKAGLTQPIGVFLGQHDGKYLR
HEGPEHILTFAPTRSGKGVGLVVPTLLSWPASAVVHDIKGENWQITAGWRSRYSHCLLFNPTDAKSAAYN
PLLEVRRGAHEVRDVQNIADILVDPEGALEKRNHWEKTSHALLVGAILHVLYAGEDKTLRGVANFLSDPA
SPFELTLHRMMTTQHLVNVEGGGPHPVVASAAREVLNKSDNERSGVLSTAMSFLGLYRDPTVAEVTSRCD
WRIADLIASEHPVSLYLVVPPSDISRTKPLIRLILNQIGRRLTESLDGSDGIERRHKLLLMLDEFPALGR
LDFFETALAFMAGYGIRSFLIAQSLNQIDKAYGQNHSILDNCHVRVTFATNDERTAKRISETLGTATELR
AQRNYAGHRLAPWLGHLMVSRQETARPLLTPGEVMQLPTEEAVVMVSSVAPIKAKKLRYYADANFKNRVL
PPPVLAAGQYADAPPARPDDWSGLSIPAVSTVRAAGLSGDGTGTADDGGPRRQPELSEVSEYSPEPLLAG
HDLTLLDDDDDLPLPLPGQLDPAMQRTARLASLDPNDGIDL

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(112-562)

  Protein structure



No available structure.



ID   15377 GenBank   WP_040113316
Name   traD_C3F35_RS25725_pLEC-7c0d insolico UniProt ID   _
Length   694 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 694 a.a.        Molecular weight: 77914.54 Da        Isoelectric Point: 8.5005

>WP_040113316.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MAKSKRTNLHAQENFYRPILEYRSASVLLICAIIMLFMGFRSDGLNIAPIILYTAAFMLLVCLYRCKTAY
PYLMAHWRVFQRQIMFISLKSLRSINKSNFFSNERKYRQLVQEYKKSNRQVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFALNPIARHFEAMARSMGGSNAIFAVDKRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDADWRQSLMDEAAELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMAILNLTVKVLECCYARH
YGPDVWMEKVKYSSNDTLQVRFKRLVEWFSAHFLNYEGAEPIDWIDTVGRLVDYSLSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNSLTSREIVTSDGIFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNSDDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANIETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSENSMRPNTTLLEMFLKPAGKVTLRQNVGLDYLNKHLRKLH

  Protein domains


Predicted by InterproScan.

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

(505-627)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 993..10611

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C3F35_RS24690 (C3F35_24690) 66..461 + 396 WP_223203170 DNA-binding protein -
C3F35_RS24695 (C3F35_24695) 754..996 - 243 WP_004883121 DUF2274 domain-containing protein -
C3F35_RS24700 (C3F35_24700) 993..2273 - 1281 WP_004883119 TrbI/VirB10 family protein virB10
C3F35_RS24705 (C3F35_24705) 2276..3268 - 993 WP_004883112 P-type conjugative transfer protein TrbG virB9
C3F35_RS24710 (C3F35_24710) 3265..3969 - 705 WP_004883108 conjugal transfer protein TrbF virB8
C3F35_RS24715 (C3F35_24715) 3999..5363 - 1365 WP_004883106 P-type conjugative transfer protein TrbL virB6
C3F35_RS24720 (C3F35_24720) 5360..5686 - 327 WP_004883103 hypothetical protein -
C3F35_RS24725 (C3F35_24725) 5699..6436 - 738 WP_004883101 P-type conjugative transfer protein TrbJ virB5
C3F35_RS24730 (C3F35_24730) 6433..8883 - 2451 WP_004883099 conjugal transfer protein TrbE virb4
C3F35_RS24735 (C3F35_24735) 8895..9167 - 273 WP_004883097 VirB3 family type IV secretion system protein virB3
C3F35_RS24740 (C3F35_24740) 9164..9547 - 384 WP_004883090 TrbC/VirB2 family protein virB2
C3F35_RS24745 (C3F35_24745) 9544..10611 - 1068 WP_004883088 P-type conjugative transfer ATPase TrbB virB11
C3F35_RS24750 (C3F35_24750) 10608..11072 - 465 WP_004883086 ribbon-helix-helix protein, CopG family -
C3F35_RS24755 (C3F35_24755) 11069..13084 - 2016 WP_004883083 conjugal transfer protein TraG -
C3F35_RS24760 (C3F35_24760) 13359..13634 - 276 WP_004883082 EexN family lipoprotein -
C3F35_RS24765 (C3F35_24765) 13631..14575 - 945 WP_004883081 LysR family transcriptional regulator -

Host bacterium

ID   21200 GenBank   NZ_CP026391
Plasmid name   pLEC-7c0d Incompatibility group   IncHI1A
Plasmid size   330021 bp Coordinate of oriT [Strand]   185022..185305 [+]
Host baterium   Leclercia sp. LSNIH3

Cargo genes

Drug resistance gene   sul1, qnrA1, qacE, ant(3'')-Ia, aac(3)-Ia, blaSHV-5
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -