Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105535
Name   oriT_GTA|unnamed1 in_silico
Organism   Yersinia massiliensis strain GTA
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP028488 (52649..52736 [+], 88 nt)
oriT length   88 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 88 nt

>oriT_GTA|unnamed1
TACGGGACAGGATATGTTTTGTAGCACCGCCTGCACGCAGTCGGCCCTACAAAACGACCTGGTCAGGGCAGAGCCCCGACACCCGCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3775 GenBank   WP_088130803
Name   Relaxase_DA391_RS23455_GTA|unnamed1 insolico UniProt ID   _
Length   651 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 651 a.a.        Molecular weight: 73862.33 Da        Isoelectric Point: 7.0270

>WP_088130803.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Yersinia]
MIPIVPEKRRDGRSSFIQLVSYLTLRDEVKPDMPISPDNPYIRPSRSKAAIFDRLIDYLDRKASVEDQTV
LAMFDDGTQQIKSGNVVCETNCFSLETASAEMNAVAMQNTRCVDAVYHCILSWREEDTPTDEQIFDSARY
CLKQLGMADHQYVVAVHRDTDNVHCHIAANRINPKSYRAANLYNDVDTLHKACRHLEMKHDFTPDNGAWK
VNGSHQVVRSENDFKSIPRKAKQLEYYADSESLFSYATGECRQSIGEIVAGDNPSWNAIHTELIRAGLEL
KPKGEGLAIYSREDESLPPIKASSLHPDLTLYCLEETLGKFEPSPEIVMLTDDNDNIIHSNYKREFIYEP
RLHARDNTARIDRRLARADAREDLKARYQAYKSAWVKPKLEGGTLKQRYQNVAKRFAWQKARARIAIGDP
LLRKLTYHIIEVERMKAIAALRIAVKAEKKVFNADPDNRRMNYHAWVEKQAFNHDQAAIAQLRGWSYRLK
RANKTPPLSENGIRCAAGDDCRPFHMEGYDTQINRDGVIQYRHDGIIQVQDRGELIEIANPFISDGQHIA
GAMTIAEEKSGEVMVFEGSRTFVNQACGLVGWFNEGGEKPLPLSDPQQRILAGYEVDRQASSSGVLQPKS
GADKLQELEQGHKPQGGYRPQ

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(55-320)


  Protein structure



No available structure.




T4CP

ID   3768 GenBank   WP_240624842
Name   trbC_DA391_RS23470_GTA|unnamed1 insolico UniProt ID   _
Length   718 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 718 a.a.        Molecular weight: 80953.54 Da        Isoelectric Point: 6.5843

>WP_240624842.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Yersinia]
MAQSVEIEARRVRRPLGYTFINDALLSPFGVQFFLLAGLVMGWIFPASLLISVPGLLLHVMLFSDRPFRM
PLRMPTDVGGIDLTTEREMPKYRNGLWGFFRYVVRTRKFFPAAGVMCLGFARGKALARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNAICWGRGICYSDGKGQNSLAFAMWSLARRFGREDDFYVLNFMTGGMDKL
LLLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDAGWQDKAKSMNAALVYAVYYKCKKEKRT
ISQTVIQSYLPLRKLAELYLEAKRDGWHKEAYNPLENYFNTLAGFRIELISQPSTWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDINIEDILHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMLNDVLIVKKYSGKFPFAIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHRGEYMT
VNANLLTKWFMALQDEKDTFELAKITGGKGYYAELGAVEQTGGIITPNYEDATNNYIREKDRLDLGDLKE
LNPGEGMISFKSALVPSSAIYIPDDDKMTSALPMRINRFIEVQTPTEAELFALNPTLLRKLPPSAQEIED
ILLHLDGPEDSTHQIGIMDPILKRIVDLTLDLDNRADISYNPTQRGILLFEAAREALHQNKRKWRHQPTP
PKTIRVSKEVATSLADAD

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 58645..86739

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DA391_RS23460 (DA391_23460) 55137..55454 - 318 WP_088130801 hypothetical protein -
DA391_RS23465 (DA391_23465) 55515..56000 - 486 WP_108088352 phospholipase D family protein -
DA391_RS23470 (DA391_23470) 56427..58583 - 2157 WP_240624842 F-type conjugative transfer protein TrbC -
DA391_RS23475 (DA391_23475) 58645..59307 - 663 WP_129111489 thioredoxin fold domain-containing protein trbB
DA391_RS23480 (DA391_23480) 59669..60991 - 1323 WP_176396512 conjugal transfer protein TrbA trbA
DA391_RS23485 (DA391_23485) 61147..61674 - 528 WP_108088334 hypothetical protein -
DA391_RS23490 (DA391_23490) 61694..63805 - 2112 WP_240624840 DotA/TraY family protein traY
DA391_RS23495 (DA391_23495) 63940..64539 - 600 WP_108088336 conjugal transfer protein TraX -
DA391_RS23500 (DA391_23500) 64532..65761 - 1230 WP_108088337 conjugal transfer protein TraW traW
DA391_RS23505 (DA391_23505) 65952..69026 - 3075 WP_108088338 conjugal transfer protein traU
DA391_RS23510 (DA391_23510) 69029..69634 - 606 WP_108088339 hypothetical protein traT
DA391_RS23515 (DA391_23515) 69725..70129 - 405 WP_108088340 DUF6750 family protein traR
DA391_RS23520 (DA391_23520) 70144..70674 - 531 WP_108088341 conjugal transfer protein TraQ traQ
DA391_RS23525 (DA391_23525) 70683..71417 - 735 WP_088130789 hypothetical protein traP
DA391_RS23530 (DA391_23530) 71417..72628 - 1212 WP_088130787 conjugal transfer protein TraO traO
DA391_RS23535 (DA391_23535) 72633..73643 - 1011 WP_088130785 DotH/IcmK family type IV secretion protein traN
DA391_RS23540 (DA391_23540) 73646..74320 - 675 WP_088130783 DotI/IcmL/TraM family protein traM
DA391_RS23545 (DA391_23545) 74405..74890 - 486 WP_108088342 hypothetical protein traL
DA391_RS23550 (DA391_23550) 74900..78100 - 3201 WP_108088343 LPD7 domain-containing protein -
DA391_RS23555 (DA391_23555) 78159..78425 - 267 WP_050074346 IcmT/TraK family protein traK
DA391_RS23560 (DA391_23560) 78425..79600 - 1176 WP_108088344 plasmid transfer ATPase TraJ virB11
DA391_RS23565 (DA391_23565) 79620..80408 - 789 WP_050074349 type IV secretory system conjugative DNA transfer family protein traI
DA391_RS23570 (DA391_23570) 80405..80860 - 456 WP_108088345 DotD/TraH family lipoprotein -
DA391_RS23575 (DA391_23575) 81008..82285 - 1278 WP_088130772 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
DA391_RS23580 (DA391_23580) 82275..82943 - 669 WP_088130829 prepilin peptidase -
DA391_RS23585 (DA391_23585) 82940..83410 - 471 WP_088130770 lytic transglycosylase domain-containing protein virB1
DA391_RS23590 (DA391_23590) 83420..84028 - 609 WP_088130769 type 4 pilus major pilin -
DA391_RS23595 (DA391_23595) 84051..85178 - 1128 WP_088130767 type II secretion system F family protein -
DA391_RS23600 (DA391_23600) 85237..86739 - 1503 WP_176396511 ATPase, T2SS/T4P/T4SS family virB11
DA391_RS23605 (DA391_23605) 86741..87277 - 537 WP_088130765 type IV pilus biogenesis protein PilP -
DA391_RS23610 (DA391_23610) 87264..88529 - 1266 WP_088130763 type 4b pilus protein PilO2 -
DA391_RS23615 (DA391_23615) 88534..90174 - 1641 WP_088130761 PilN family type IVB pilus formation outer membrane protein -
DA391_RS23620 (DA391_23620) 90185..90610 - 426 WP_088130760 type IV pilus biogenesis protein PilM -
DA391_RS23625 (DA391_23625) 90607..91614 - 1008 WP_088130758 TcpQ domain-containing protein -

Host bacterium

ID   5973 GenBank   NZ_CP028488
Plasmid name   GTA|unnamed1 Incompatibility group   -
Plasmid size   121622 bp Coordinate of oriT [Strand]   52649..52736 [+]
Host baterium   Yersinia massiliensis strain GTA

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -