Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120765
Name   oriT_pLEC-1cb1 in_silico
Organism   Leclercia sp. LSNIH1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP026171 (177245..177528 [+], 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-1cb1
GTTATTGCCGCTTAATGCCGATAACGATTCGGGCTTTGCTATTTTTTTAAGCGATTAAAATTTCGTTAGCAAGCGCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTCAAAAAGTGTTACAAGTAAGGCCAATGGATGAATGGTTAGTTTTAAGACTCAAATAGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCATTCAAAAACCAAACTTTAATTTCATGTAGAAGATTAGTACAATTGTATTGACGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13093 GenBank   WP_223203175
Name   mobH_C2U54_RS26140_pLEC-1cb1 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   15367 GenBank   WP_004883083
Name   t4cp2_C2U54_RS25450_pLEC-1cb1 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   15368 GenBank   WP_004883099
Name   trbE_C2U54_RS25475_pLEC-1cb1 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   15369 GenBank   WP_040113316
Name   traD_C2U54_RS26135_pLEC-1cb1 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: 2204..11372

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C2U54_RS25150 (C2U54_25130) 2204..4885 - 2682 WP_040113303 IncHI-type conjugal transfer ATPase TrhC virb4
C2U54_RS25155 (C2U54_25135) 4894..5844 - 951 WP_015063108 TraV family lipoprotein traV
C2U54_RS25160 (C2U54_25140) 5854..6606 - 753 WP_185757620 protein-disulfide isomerase HtdT -
C2U54_RS25165 (C2U54_25145) 6712..7218 - 507 WP_015063106 hypothetical protein -
C2U54_RS25170 (C2U54_25150) 7227..8585 - 1359 WP_022652153 IncHI-type conjugal transfer protein TrhB traB
C2U54_RS25175 (C2U54_25155) 8575..9015 - 441 WP_015063104 plasmid transfer protein HtdO -
C2U54_RS25180 (C2U54_25160) 9017..10255 - 1239 WP_015063103 type-F conjugative transfer system secretin TraK traK
C2U54_RS25185 (C2U54_25165) 10258..11043 - 786 WP_022652152 TraE/TraK family type IV conjugative transfer system protein traE
C2U54_RS25190 (C2U54_25170) 11055..11372 - 318 WP_022652151 type IV conjugative transfer system protein TraL traL
C2U54_RS25195 (C2U54_25175) 11424..11777 - 354 WP_015063100 hypothetical protein -
C2U54_RS27570 12067..12252 - 186 WP_032610388 hypothetical protein -
C2U54_RS25205 (C2U54_25185) 13303..14178 - 876 WP_015063098 RepB family plasmid replication initiator protein -
C2U54_RS25210 (C2U54_25190) 14720..15793 + 1074 WP_022652149 hypothetical protein -
C2U54_RS25215 (C2U54_25195) 15811..16011 + 201 WP_022652148 hypothetical protein -

Region 2: 65548..75166

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C2U54_RS25440 (C2U54_25415) 61576..62520 + 945 WP_004883081 LysR family transcriptional regulator -
C2U54_RS25445 (C2U54_25420) 62517..62792 + 276 WP_004883082 EexN family lipoprotein -
C2U54_RS25450 (C2U54_25425) 63075..65090 + 2016 WP_004883083 conjugal transfer protein TraG -
C2U54_RS25455 (C2U54_25430) 65087..65551 + 465 WP_004883086 ribbon-helix-helix protein, CopG family -
C2U54_RS25460 (C2U54_25435) 65548..66615 + 1068 WP_004883088 P-type conjugative transfer ATPase TrbB virB11
C2U54_RS25465 (C2U54_25440) 66612..66995 + 384 WP_004883090 TrbC/VirB2 family protein virB2
C2U54_RS25470 (C2U54_25445) 66992..67264 + 273 WP_004883097 VirB3 family type IV secretion system protein virB3
C2U54_RS25475 (C2U54_25450) 67276..69726 + 2451 WP_004883099 conjugal transfer protein TrbE virb4
C2U54_RS25480 (C2U54_25455) 69723..70460 + 738 WP_004883101 P-type conjugative transfer protein TrbJ virB5
C2U54_RS25485 (C2U54_25460) 70473..70799 + 327 WP_004883103 hypothetical protein -
C2U54_RS25490 (C2U54_25465) 70796..72160 + 1365 WP_004883106 P-type conjugative transfer protein TrbL virB6
C2U54_RS25495 (C2U54_25470) 72190..72894 + 705 WP_004883108 conjugal transfer protein TrbF virB8
C2U54_RS25500 (C2U54_25475) 72891..73883 + 993 WP_103181208 P-type conjugative transfer protein TrbG virB9
C2U54_RS25505 (C2U54_25480) 73886..75166 + 1281 WP_004883119 TrbI/VirB10 family protein virB10
C2U54_RS25510 (C2U54_25485) 75163..75405 + 243 WP_004883121 DUF2274 domain-containing protein -
C2U54_RS25515 (C2U54_25490) 75698..76093 - 396 WP_223203170 DNA-binding protein -
C2U54_RS25520 (C2U54_25495) 76083..76355 - 273 WP_022652138 hypothetical protein -
C2U54_RS27575 76464..76622 + 159 WP_022652137 hypothetical protein -
C2U54_RS27580 76669..76995 - 327 WP_015063087 hypothetical protein -
C2U54_RS25525 (C2U54_25500) 77184..77699 + 516 WP_015063086 hypothetical protein -
C2U54_RS25530 (C2U54_25505) 78287..79168 - 882 WP_015063085 RepB family plasmid replication initiator protein -

Host bacterium

ID   21194 GenBank   NZ_CP026171
Plasmid name   pLEC-1cb1 Incompatibility group   IncHI1A
Plasmid size   341250 bp Coordinate of oriT [Strand]   177245..177528 [+]
Host baterium   Leclercia sp. LSNIH1

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   -