Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104794
Name   oriT_pUMH14_1 in_silico
Organism   Citrobacter freundii strain UMH14
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP024681 (111529..111608 [+], 80 nt)
oriT length   80 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 80 nt

>oriT_pUMH14_1
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3401 GenBank   WP_048227654
Name   Relaxase_CUC46_RS24260_pUMH14_1 insolico UniProt ID   A0A8H9UN45
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 102477.49 Da        Isoelectric Point: 8.3859

>WP_048227654.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MIAVIPPKRQDGKSSFGDLVSYVSVRDEPRDDDLMEAVKASGTKPEMPHSSRFSRLVDYATKLRDESFIS
LVDVMPDGSEWVNFYGVTCFHNCTSIESAAEEMEFSARKAKFAHNKSDPVFHYILSWQSHESPRPEQIYD
SVSHTLSRLGLAGHQFVSAVHTDTDNLHVHIAVNRVHPETGYLNRLAYSQEKLSKACRELELKHGFSPDN
GCYVIAPDNRIVRRTSIERDRQSAWKRGRIQSLREYIADTAIAGLREAPVTDWSSLHQRFAKEGLFLSAD
NGELKVKDGWDSERPGVTLSAFGHAFDTEKLIRKLGEFTPPAQDIFSQVQAVGRYEPEKITVPSRPERMT
EKDTLTDYATARLRAPLIALDQDPSQRTIQSVHTLLAKSGLYLKEQHDRLVICDGYDPTRTPVRAERVWP
ALTKAVLDSYKGGWKPVPKDIFQQVPPAEQFTGGGLEATPVSDREWRKLRTGSGPQGALKREIFSDKESL
WGYAVSHCRQEIETLISSKHFSWERCHEQFAKQGLLLVREQQGLVVMDAYNREQTPVKASHVHPDLTLAR
AEPHAGSFVPVPADIFERVKPVSRYNPELAVSDRDIPGMKRDPELRRQRREARAAAREDLKARYAAWRAN
WQRPDLRGRERYQAIHDECRMRKARIRIEHRDPLVRKLYYHIVELQRMQALITLKEAMKAERAELIGQGT
WYPPSYRQWVEAEAVKGDKAAISQLRGWDYKDRRGNAVKSTTDSRCVVICEPGGTPMYSGVPGLQASLKK
NGRVQFRDPETGRHICTDYGDRVIFRNTGDYDSLKRDMVKVAPVLFSRSPTVAMAPEGNDEQFNTAFAKM
VAWHNVNHRDEAEYHIARPDVDQLRVEHEQQFTNVLNQSSYAPDAQASHQNTWEPPTPR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(53-317)


  Protein structure



No available structure.




T4CP

ID   3336 GenBank   WP_053389033
Name   trbC_CUC46_RS24240_pUMH14_1 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 87413.54 Da        Isoelectric Point: 6.8253

>WP_053389033.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MNNTPVNQALMKRNAWNSPVLELMRDHLLYAGIMAGSVVAGFIWPLAIPLFLLLTIVASISFGTHRWRMP
MRMPVHLNKVDPSEDRKVRRSFFRAFPSLFQYETTQESKGKGIFYIGYKRMNDIGRELWLTLDDLTRHVM
FFASTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTCYYLARRFGREDDVEYINFMNSGMSRSEM
IQNGDKSRPQSHQWNPFCYSTEAFVAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKFYCVRENKTMSL
QLLREFMPLEKLAGLYCRAVDDQWPEEAVSPLYNYLVDVPGFDMATVRQPSAWTEEPRKQHSYLTGQFLE
TFNTFTETFGNIFAEDAGDIDIRDSIHSDRILLVLIPAMNTSQHTTSALGRMFVTQQSMILARDLGHKLE
GLDSEALEITKYKGKFPYMNYLDEVGAYYTERIAVQATQVRSLEFALVMMSQDQERIENQTSAANVATLM
QNAGTKVAGKIVSDDKTARTISNAAGQEARANMVSLQRQDGLIGTSWIDGDHINIQMENKINVQDLIKLQ
PGENYTVFQGDPVPGASFYIEPQDKTCNAPVIINRYITINPPNLKQLRKLVPRTAQRRLPAAENVSKIIG
VLTEKPSRRRKAARTEPWKIIDTFQQRLANRQEAHNLMTEYDMDHGGREENLWAEALEIIRTTTMAERTI
RYITLNKPESESTEVNAEEIQLAPDAILRNLTLPQPAYVPPARHRNEPFFSPKQTSSPQPDMEWPE

  Protein domains


Predicted by InterproScan.

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

(440-527)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 67039..102340

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CUC46_RS24065 (CUC46_24265) 63115..63555 + 441 WP_236582906 type IV pilus biogenesis protein PilM -
CUC46_RS24070 (CUC46_24270) 63570..65246 + 1677 WP_048227625 PilN family type IVB pilus formation outer membrane protein -
CUC46_RS24075 (CUC46_24275) 65248..66552 + 1305 WP_048227626 type 4b pilus protein PilO2 -
CUC46_RS24080 (CUC46_24280) 66536..67036 + 501 WP_053069306 type IV pilus biogenesis protein PilP -
CUC46_RS24085 (CUC46_24285) 67039..68598 + 1560 WP_048227627 ATPase, T2SS/T4P/T4SS family virB11
CUC46_RS24090 (CUC46_24290) 68591..69685 + 1095 WP_040231337 type II secretion system F family protein -
CUC46_RS24095 (CUC46_24295) 69699..70313 + 615 WP_052463753 type 4 pilus major pilin -
CUC46_RS24100 (CUC46_24300) 70398..70880 + 483 WP_069325157 lytic transglycosylase domain-containing protein virB1
CUC46_RS24105 (CUC46_24305) 70865..71539 + 675 WP_121572313 prepilin peptidase -
CUC46_RS24110 (CUC46_24310) 71536..72822 + 1287 WP_058687259 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
CUC46_RS24115 (CUC46_24315) 72877..73383 + 507 WP_077223963 sugar O-acetyltransferase -
CUC46_RS24120 (CUC46_24320) 73814..74974 + 1161 WP_048227629 site-specific integrase -
CUC46_RS24960 74994..75470 + 477 WP_145996426 hypothetical protein -
CUC46_RS24125 (CUC46_24325) 75616..76452 + 837 WP_048227630 hypothetical protein traE
CUC46_RS24130 (CUC46_24330) 76555..77763 + 1209 WP_099530103 conjugal transfer protein TraF -
CUC46_RS24135 (CUC46_24335) 77896..78369 + 474 WP_121572314 DotD/TraH family lipoprotein -
CUC46_RS24140 (CUC46_24340) 78366..79172 + 807 WP_121572315 type IV secretory system conjugative DNA transfer family protein traI
CUC46_RS24145 (CUC46_24345) 79184..80344 + 1161 WP_048227634 plasmid transfer ATPase TraJ virB11
CUC46_RS24150 (CUC46_24350) 80341..80628 + 288 WP_048227635 hypothetical protein traK
CUC46_RS24155 (CUC46_24355) 80700..83867 + 3168 Protein_87 DUF5710 domain-containing protein -
CUC46_RS24160 (CUC46_24360) 85217..85567 + 351 WP_048227636 hypothetical protein traL
CUC46_RS24165 (CUC46_24365) 85702..86274 + 573 WP_236650920 DotI/IcmL/TraM family protein traM
CUC46_RS24170 (CUC46_24370) 86285..87268 + 984 WP_048227638 DotH/IcmK family type IV secretion protein traN
CUC46_RS24175 (CUC46_24375) 87268..88584 + 1317 WP_069325141 conjugal transfer protein TraO traO
CUC46_RS24180 (CUC46_24380) 88565..89338 + 774 WP_129719564 conjugal transfer protein TraP traP
CUC46_RS24185 (CUC46_24385) 89338..89862 + 525 WP_048227641 conjugal transfer protein TraQ traQ
CUC46_RS24190 (CUC46_24390) 89897..90301 + 405 WP_048227642 DUF6750 family protein traR
CUC46_RS24195 (CUC46_24395) 90485..91216 + 732 WP_069325142 hypothetical protein traT
CUC46_RS24200 (CUC46_24400) 91288..94341 + 3054 WP_121572317 ATP-binding protein traU
CUC46_RS25030 94338..94910 + 573 WP_161556285 conjugal transfer protein TraV traV
CUC46_RS24205 (CUC46_24405) 94923..96125 + 1203 WP_048227644 conjugal transfer protein TraW traW
CUC46_RS24210 (CUC46_24410) 96122..96664 + 543 WP_094935555 conjugal transfer protein TraX -
CUC46_RS24215 (CUC46_24415) 96721..98883 + 2163 WP_121572318 DotA/TraY family protein traY
CUC46_RS24220 (CUC46_24420) 98945..99577 + 633 WP_053069310 plasmid IncI1-type surface exclusion protein ExcA -
CUC46_RS24225 (CUC46_24425) 99880..101088 + 1209 WP_053389036 hypothetical protein trbA
CUC46_RS24230 (CUC46_24430) 101141..102340 + 1200 WP_053389035 thioredoxin fold domain-containing protein trbB
CUC46_RS24235 (CUC46_24435) 102396..103526 - 1131 WP_053389034 RNA-guided endonuclease TnpB family protein -
CUC46_RS24240 (CUC46_24440) 103635..105935 + 2301 WP_053389033 F-type conjugative transfer protein TrbC -
CUC46_RS24245 (CUC46_24445) 106008..106277 + 270 WP_048227650 hypothetical protein -
CUC46_RS24250 (CUC46_24450) 106308..107084 - 777 WP_121572319 hypothetical protein -

Host bacterium

ID   5233 GenBank   NZ_CP024681
Plasmid name   pUMH14_1 Incompatibility group   -
Plasmid size   134386 bp Coordinate of oriT [Strand]   111529..111608 [+]
Host baterium   Citrobacter freundii strain UMH14

Cargo genes

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