Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118499
Name   oriT_MSB1_1H|2 in_silico
Organism   Citrobacter freundii strain MSB1_1H isolate MSB1_1H
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR890182 (80862..80941 [-], 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_MSB1_1H|2
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11744 GenBank   WP_048227654
Name   Relaxase_JMV71_RS24075_MSB1_1H|2 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   13755 GenBank   WP_053389033
Name   trbC_JMV71_RS24095_MSB1_1H|2 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: 90130..126591

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JMV71_RS24085 85386..86162 + 777 WP_121572319 hypothetical protein -
JMV71_RS24090 86193..86462 - 270 WP_048227650 hypothetical protein -
JMV71_RS24095 86535..88835 - 2301 WP_053389033 F-type conjugative transfer protein TrbC -
JMV71_RS24100 88944..90074 + 1131 WP_053389034 RNA-guided endonuclease TnpB family protein -
JMV71_RS24105 90130..91329 - 1200 WP_053389035 thioredoxin fold domain-containing protein trbB
JMV71_RS24110 91382..92590 - 1209 WP_053389036 hypothetical protein trbA
JMV71_RS24115 92893..93525 - 633 WP_053069310 plasmid IncI1-type surface exclusion protein ExcA -
JMV71_RS24120 93587..95749 - 2163 WP_053389037 DotA/TraY family protein traY
JMV71_RS24125 95806..96348 - 543 WP_094935555 conjugal transfer protein TraX -
JMV71_RS24130 96345..97547 - 1203 WP_048227644 conjugal transfer protein TraW traW
JMV71_RS24135 97560..98132 - 573 WP_161556285 conjugal transfer protein TraV traV
JMV71_RS24140 98129..101182 - 3054 WP_121572317 ATP-binding protein traU
JMV71_RS24145 101254..101985 - 732 WP_069325142 hypothetical protein traT
JMV71_RS24150 102169..102573 - 405 WP_048227642 DUF6750 family protein traR
JMV71_RS24155 102608..103132 - 525 WP_048227641 conjugal transfer protein TraQ traQ
JMV71_RS24160 103132..103905 - 774 WP_129719564 conjugal transfer protein TraP traP
JMV71_RS24165 103886..105202 - 1317 WP_069325141 conjugal transfer protein TraO traO
JMV71_RS24170 105202..106185 - 984 WP_048227638 DotH/IcmK family type IV secretion protein traN
JMV71_RS24175 106196..106897 - 702 WP_048227637 DotI/IcmL/TraM family protein traM
JMV71_RS24180 106903..107253 - 351 WP_048227636 hypothetical protein traL
JMV71_RS24185 108555..111770 - 3216 Protein_119 LPD7 domain-containing protein -
JMV71_RS24190 111842..112129 - 288 WP_048227635 hypothetical protein traK
JMV71_RS24195 112126..113286 - 1161 WP_048227634 plasmid transfer ATPase TraJ virB11
JMV71_RS24200 113298..114104 - 807 WP_121572315 type IV secretory system conjugative DNA transfer family protein traI
JMV71_RS24205 114101..114574 - 474 WP_121572314 DotD/TraH family lipoprotein -
JMV71_RS24210 114707..115915 - 1209 WP_099530103 conjugal transfer protein TraF -
JMV71_RS24215 116018..116854 - 837 WP_048227630 hypothetical protein traE
JMV71_RS24220 117000..117476 - 477 WP_145996426 hypothetical protein -
JMV71_RS24225 117496..118656 - 1161 WP_048227629 site-specific integrase -
JMV71_RS24230 119482..119865 + 384 Protein_128 phage tail protein -
JMV71_RS24235 120247..120753 - 507 WP_077223963 sugar O-acetyltransferase -
JMV71_RS24240 120808..122094 - 1287 WP_058687259 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
JMV71_RS24245 122091..122765 - 675 WP_121572313 prepilin peptidase -
JMV71_RS24250 122750..123232 - 483 WP_069325157 lytic transglycosylase domain-containing protein virB1
JMV71_RS24255 123317..123931 - 615 WP_052463753 type 4 pilus major pilin -
JMV71_RS24260 123945..125039 - 1095 WP_040231337 type II secretion system F family protein -
JMV71_RS24265 125032..126591 - 1560 WP_048227627 GspE/PulE family protein virB11
JMV71_RS24270 126594..127094 - 501 WP_053069306 type IV pilus biogenesis protein PilP -
JMV71_RS24275 127078..128382 - 1305 WP_048227626 type 4b pilus protein PilO2 -
JMV71_RS24280 128384..130060 - 1677 WP_048227625 PilN family type IVB pilus formation outer membrane protein -
JMV71_RS24285 130075..130515 - 441 WP_236582906 type IV pilus biogenesis protein PilM -

Host bacterium

ID   18932 GenBank   NZ_LR890182
Plasmid name   MSB1_1H|2 Incompatibility group   -
Plasmid size   135529 bp Coordinate of oriT [Strand]   80862..80941 [-]
Host baterium   Citrobacter freundii strain MSB1_1H isolate MSB1_1H

Cargo genes

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