Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120500
Name   oriT_111|unnamed2 in_silico
Organism   Citrobacter freundii strain 111
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP046504 (66802..66890 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_111|unnamed2
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTTTTTTCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12909 GenBank   WP_048227654
Name   Relaxase_GOL70_RS26155_111|unnamed2 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   15160 GenBank   WP_048227649
Name   trbC_GOL70_RS26175_111|unnamed2 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: 87397.54 Da        Isoelectric Point: 6.8253

>WP_048227649.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Citrobacter freundii complex]
MNNTPVNQALMKRNAWNSPVLELMRDHLLYAGIMAGSVVAGFIWPLAIPLFLLLAIVASISFGTHRWRMP
MRMPVHLNKIDPSEDRKVRRSFFRAFPSLFQYETTQESKGKGIFYIGYKRMNDIGRELWLTLDDLTRHVM
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: 74788..112691

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GOL70_RS26160 (GOL70_26155) 70058..71209 + 1152 WP_048227653 Fic family protein -
GOL70_RS26165 (GOL70_26160) 71335..72111 + 777 WP_094935554 hypothetical protein -
GOL70_RS26170 (GOL70_26165) 72142..72411 - 270 WP_048227650 hypothetical protein -
GOL70_RS26175 (GOL70_26170) 72484..74784 - 2301 WP_048227649 F-type conjugative transfer protein TrbC -
GOL70_RS26180 (GOL70_26175) 74788..75987 - 1200 WP_053069311 hypothetical protein trbB
GOL70_RS26185 (GOL70_26180) 76040..77248 - 1209 WP_048227648 hypothetical protein trbA
GOL70_RS26190 (GOL70_26185) 77390..78661 + 1272 WP_161507814 transposase -
GOL70_RS26195 (GOL70_26190) 78994..79626 - 633 WP_053069310 plasmid IncI1-type surface exclusion protein ExcA -
GOL70_RS26200 (GOL70_26195) 79688..81850 - 2163 WP_053389037 DotA/TraY family protein traY
GOL70_RS26205 (GOL70_26200) 81907..82449 - 543 WP_048227645 conjugal transfer protein TraX -
GOL70_RS26210 (GOL70_26205) 82446..83648 - 1203 WP_048227644 conjugal transfer protein TraW traW
GOL70_RS26215 (GOL70_26210) 83661..84233 - 573 WP_164850802 conjugal transfer protein TraV traV
GOL70_RS26220 (GOL70_26215) 84230..87283 - 3054 WP_048227643 conjugal transfer protein traU
GOL70_RS26225 (GOL70_26220) 87355..88086 - 732 WP_069325142 hypothetical protein traT
GOL70_RS26230 (GOL70_26225) 88270..88674 - 405 WP_048227642 DUF6750 family protein traR
GOL70_RS26235 (GOL70_26230) 88709..89233 - 525 WP_048227641 conjugal transfer protein TraQ traQ
GOL70_RS26240 (GOL70_26235) 89233..90006 - 774 WP_129719564 conjugal transfer protein TraP traP
GOL70_RS26245 (GOL70_26240) 89987..91303 - 1317 WP_048227639 conjugal transfer protein TraO traO
GOL70_RS26250 (GOL70_26245) 91303..92286 - 984 WP_048227638 DotH/IcmK family type IV secretion protein traN
GOL70_RS26255 (GOL70_26250) 92297..92998 - 702 WP_048227637 DotI/IcmL/TraM family protein traM
GOL70_RS26260 (GOL70_26255) 93004..93354 - 351 WP_048227636 hypothetical protein traL
GOL70_RS26265 (GOL70_26260) 94656..97871 - 3216 Protein_102 LPD7 domain-containing protein -
GOL70_RS26270 (GOL70_26265) 97943..98230 - 288 WP_048227635 hypothetical protein traK
GOL70_RS26275 (GOL70_26270) 98227..99387 - 1161 WP_048227634 plasmid transfer ATPase TraJ virB11
GOL70_RS26280 (GOL70_26275) 99399..100205 - 807 WP_048227633 type IV secretory system conjugative DNA transfer family protein traI
GOL70_RS26285 (GOL70_26280) 100202..100675 - 474 WP_048227632 DotD/TraH family lipoprotein -
GOL70_RS26290 (GOL70_26285) 100808..102016 - 1209 WP_048227631 conjugal transfer protein TraF -
GOL70_RS26295 (GOL70_26290) 102119..102955 - 837 WP_048227630 hypothetical protein traE
GOL70_RS26300 (GOL70_26295) 103101..103577 - 477 WP_127674287 hypothetical protein -
GOL70_RS26305 (GOL70_26300) 103597..104757 - 1161 WP_326930168 site-specific integrase -
GOL70_RS26310 (GOL70_26305) 105362..105742 + 381 Protein_111 tail fiber protein -
GOL70_RS26315 (GOL70_26310) 106347..106853 - 507 WP_077223963 sugar O-acetyltransferase -
GOL70_RS26320 (GOL70_26315) 106908..108194 - 1287 WP_053069307 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
GOL70_RS26325 (GOL70_26320) 108191..108865 - 675 WP_048227628 prepilin peptidase -
GOL70_RS26330 (GOL70_26325) 108850..109332 - 483 WP_069325157 lytic transglycosylase domain-containing protein virB1
GOL70_RS26335 (GOL70_26330) 109417..110031 - 615 WP_052463753 type 4 pilus major pilin -
GOL70_RS26340 (GOL70_26335) 110045..111139 - 1095 WP_040231337 type II secretion system F family protein -
GOL70_RS26345 (GOL70_26340) 111132..112691 - 1560 WP_048227627 GspE/PulE family protein virB11
GOL70_RS26350 (GOL70_26345) 112694..113194 - 501 WP_053069306 type IV pilus biogenesis protein PilP -
GOL70_RS26355 (GOL70_26350) 113178..114482 - 1305 WP_048227626 type 4b pilus protein PilO2 -
GOL70_RS26360 (GOL70_26355) 114484..116160 - 1677 WP_048227625 PilN family type IVB pilus formation outer membrane protein -
GOL70_RS26365 (GOL70_26360) 116175..116615 - 441 WP_224773767 type IV pilus biogenesis protein PilM -

Host bacterium

ID   20929 GenBank   NZ_CP046504
Plasmid name   111|unnamed2 Incompatibility group   -
Plasmid size   121629 bp Coordinate of oriT [Strand]   66802..66890 [-]
Host baterium   Citrobacter freundii strain 111

Cargo genes

Drug resistance gene   tet(D), blaCTX-M-3, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -