Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115066
Name   oriT_SJC1058|2 in_silico
Organism   Serratia marcescens strain SJC1058
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OX291725 (47853..47935 [+], 83 nt)
oriT length   83 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 83 nt

>oriT_SJC1058|2
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9642 GenBank   WP_127147015
Name   traI_N4J70_RS26580_SJC1058|2 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: 73503.66 Da        Isoelectric Point: 7.2757

>WP_127147015.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Serratia]
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDTPLEPEHPGWRRPRSKDDIFNHLVDYISRNGDADLQQI
MHADPHGHTQVMFDGVMCETNCFNITTASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFS
VNEQGEIVRSKREKSLTPSGAKALEYYADVESLHTYAVTECGFKIDEAMADPNLTWKDVHRILVNAGLAL
KPKGKGLAIYSIDNHELPPVKASSVHPDLTLGCLEKDLGLFQPLENVGTYTKDHTTTATDAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKHSWKRPRLDASVVKRRYQNESKRFAWQKARARVAVGDP
LLRKLTYHIIEVERMKAMAALRLAVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPISTNSIVCAVADDTPAFALEGYATQVTRDGTVQYVRDGCVELQDKGERIEVGNHRVNEGEHIA
GGMALAENKSGEHLKFEGESAFVQQACSLVRWFNEGGDTPLPLSDPQQRIMAGYDASSQAISTGEGQHKL
SAAEQPDVEQSKPRSGYRPQQ

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(519-589)

Relaxase/Mobilisation nuclease domain (Relaxase)

(53-318)


  Protein structure



No available structure.




T4CP

ID   11250 GenBank   WP_240504994
Name   trbC_N4J70_RS26595_SJC1058|2 insolico UniProt ID   _
Length   725 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 725 a.a.        Molecular weight: 81676.43 Da        Isoelectric Point: 8.3681

>WP_240504994.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Serratia]
MSRPVEVDPRRVRRPLGYTFINDALLSPIGVQLSLLAGLIVGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELINKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFDLARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSSLPMRINRFIDVETPTEAELFTLNPSLKRKLPPTAQEIDG
ILQRLEQAMDTTTSAGMMDPVLKRVAAVALDLDNRADISYSPTQRGVLLFEAAREALHQNKRNWRQLPSP
PKPIRVSKEVAQSLANAGTNQITFR

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 53402..82710

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N4J70_RS26585 (SAMEA13201026_05290) 50307..50630 - 324 WP_127147014 hypothetical protein -
N4J70_RS26590 (SAMEA13201026_05291) 50640..51176 - 537 WP_127147013 phospholipase D family protein -
N4J70_RS26595 (SAMEA13201026_05292) 51187..53364 - 2178 WP_240504994 F-type conjugative transfer protein TrbC -
N4J70_RS26600 (SAMEA13201026_05293) 53402..54415 - 1014 WP_127147012 hypothetical protein trbB
N4J70_RS26605 (SAMEA13201026_05294) 54429..55739 - 1311 WP_259694940 conjugal transfer protein TrbA trbA
N4J70_RS26610 (SAMEA13201026_05295) 55868..56446 - 579 WP_127147011 hypothetical protein -
N4J70_RS26615 (SAMEA13201026_05296) 56443..58587 - 2145 WP_127147010 DotA/TraY family protein traY
N4J70_RS26620 (SAMEA13201026_05297) 58652..59215 - 564 WP_127147009 conjugal transfer protein TraX -
N4J70_RS26625 (SAMEA13201026_05298) 59208..60434 - 1227 WP_127147008 conjugal transfer protein TraW traW
N4J70_RS26630 (SAMEA13201026_05300) 60575..63649 - 3075 WP_127147007 ATP-binding protein traU
N4J70_RS26635 (SAMEA13201026_05301) 63652..64257 - 606 WP_127147006 hypothetical protein traT
N4J70_RS26640 (SAMEA13201026_05302) 64342..64743 - 402 WP_127147005 DUF6750 family protein traR
N4J70_RS26645 (SAMEA13201026_05303) 64759..65289 - 531 WP_010895872 conjugal transfer protein TraQ traQ
N4J70_RS26650 (SAMEA13201026_05304) 65298..66041 - 744 WP_127147004 hypothetical protein traP
N4J70_RS26655 (SAMEA13201026_05305) 66041..67273 - 1233 WP_127147003 conjugal transfer protein TraO traO
N4J70_RS26660 (SAMEA13201026_05306) 67278..68285 - 1008 WP_127147002 DotH/IcmK family type IV secretion protein traN
N4J70_RS26665 (SAMEA13201026_05307) 68288..68962 - 675 WP_127147001 DotI/IcmL/TraM family protein traM
N4J70_RS26670 (SAMEA13201026_05308) 69055..69546 - 492 WP_127147000 hypothetical protein traL
N4J70_RS26675 (SAMEA13201026_05309) 69556..72789 - 3234 WP_127146999 LPD7 domain-containing protein -
N4J70_RS26680 (SAMEA13201026_05310) 72786..72923 - 138 WP_197842307 hypothetical protein -
N4J70_RS26685 (SAMEA13201026_05311) 72932..73198 - 267 WP_127146998 IcmT/TraK family protein traK
N4J70_RS26690 (SAMEA13201026_05312) 73198..74355 - 1158 WP_127146997 plasmid transfer ATPase TraJ virB11
N4J70_RS26695 (SAMEA13201026_05313) 74386..75174 - 789 WP_017891019 type IV secretory system conjugative DNA transfer family protein traI
N4J70_RS26700 75171..75635 - 465 WP_259694939 DotD/TraH family lipoprotein -
N4J70_RS26705 (SAMEA13201026_05314) 75736..76812 - 1077 WP_127146996 acyltransferase -
N4J70_RS26710 (SAMEA13201026_05315) 76892..78277 - 1386 WP_259694938 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
N4J70_RS26715 (SAMEA13201026_05316) 78274..78942 - 669 WP_127146995 prepilin peptidase -
N4J70_RS26720 (SAMEA13201026_05317) 78942..79427 - 486 WP_048795524 lytic transglycosylase domain-containing protein virB1
N4J70_RS26725 (SAMEA13201026_05318) 79482..80072 - 591 WP_127146994 type 4 pilus major pilin -
N4J70_RS26730 (SAMEA13201026_05319) 80108..81223 - 1116 WP_127146993 type II secretion system F family protein -
N4J70_RS26735 (SAMEA13201026_05320) 81220..82710 - 1491 WP_127146992 GspE/PulE family protein virB11
N4J70_RS26740 (SAMEA13201026_05321) 82716..83300 - 585 WP_127146991 type IV pilus biogenesis protein PilP -
N4J70_RS26745 (SAMEA13201026_05322) 83287..84591 - 1305 WP_127146990 type 4b pilus protein PilO2 -
N4J70_RS26750 84595..86229 - 1635 WP_127146989 PilN family type IVB pilus formation outer membrane protein -
N4J70_RS26755 (SAMEA13201026_05324) 86253..86678 - 426 WP_127146988 type IV pilus biogenesis protein PilM -
N4J70_RS26760 (SAMEA13201026_05325) 86678..87706 - 1029 WP_127146987 toxin co-regulated pilus biosynthesis Q family protein -

Host bacterium

ID   15501 GenBank   NZ_OX291725
Plasmid name   SJC1058|2 Incompatibility group   -
Plasmid size   96714 bp Coordinate of oriT [Strand]   47853..47935 [+]
Host baterium   Serratia marcescens strain SJC1058

Cargo genes

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