Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200144
Name   oriT_ICEMlSym(NZP2037)-alpha in_silico
Organism   Mesorhizobium loti NZP2037
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP016079 (94280..94340 [+], 61 nt)
oriT length   61 nt
IRs (inverted repeats)      26..33, 37..44  (ACCGCCTC..GAGGCGGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 61 nt

>oriT_ICEMlSym(NZP2037)-alpha
AAAACGATGTGCAGACAAAGACTTGACCGCCTCGTGGAGGCGGTGCCTTTATCTTGCCTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   16587 GenBank   ANN60644
Name   t4cp2_A9174_30700_ICEMlSym(NZP2037)-alpha insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 90140.67 Da        Isoelectric Point: 5.9573

>ANN60644.1 conjugal transfer protein TrbE [Mesorhizobium loti NZP2037]
MLNLSEYRGKADRLADHLPWAALVAPGIVLNKDGSVQRTLRFRGPDLESATEAELIGICARANNALRRLG
SGWTLFFEAERIEALGYPSSRFPDAASWLVDEERRAAFEGKVAHFESRYHLTLLSMPPPDAQARAESALV
DSHHSEGERDWRQEIARFRDETDRVLDLLSGFMPEVRLLDDAETLTYLHDTISTRRHPVAVPETPMYLDG
ILVDVPLTGGLEPMLGEQHLRTLTILGFPNLTRPGILDALNHQDFAYRWMTRFIPLGKTEATKTLTRLRR
QWFAKRKSMVAILREVVSNEPVPLVDSDADNKALDADEALQALGGDHIGFGYLTATVTVWDEDRQAAAEK
LRAVERIINGLGFTTIRESVNAVEAWLGSLPGHVYANVRQPLVHTLNLAHLMPLSSVWAGPAANEHLAEI
TGREAPPLLIAETSGSTPFRLSSHVEDVGHMLIVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AATLAMGGEHHVLGSDGALAFQPLRNIGDQGRRSWAAEWIAGLIAHENVALTPEVKEAIWSALNSLATAP
AQERTLTGLSVLLQSNALKSALMPYTLDGPFGRLLDADDDRLALSDVQCFETEELMHSQSAVLPVLTYLF
HRLEERFDGRPTLLMLDEAWVDLDNPLFAARIREWLKVLRKKNVSVIFATQSLADIAGSAIAPAIIESCP
QRIFLPNDRAVEPQARTAYERFGLNNRQIELIARATPKRHYYLQSRCGNRRFELGLGPIALALCGASGPA
AQSLIDRVLSEHGQDSFVFRFLGACGLDWAAELLQQFPQPTKEQSS

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(307-389)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(179-284)

TraG P-loop domain (P-loop_TraG)

(578-730)

  Protein structure



No available structure.



ID   16588 GenBank   ANN60649
Name   t4cp2_A9174_30725_ICEMlSym(NZP2037)-alpha insolico UniProt ID   _
Length   676 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 676 a.a.        Molecular weight: 75073.54 Da        Isoelectric Point: 6.6518

>ANN60649.1 conjugal transfer protein TraG [Mesorhizobium loti NZP2037]
MTPTKLLIGQIAIVFAIVLLGVWAATQWCAHMLAFQEQLGAPWFVAAGWPIYEPWKLLEWWFQFDAYAPE
VFDKAGMLAGASGFMGCAAAIAGSLWRARQRGLVTTYGSSRWAVTREIEKAGLFQPAGVFLGKLKDRYLR
HDGPEHVMAFAPTRSGKGVGLVVPTLLSWSGSAVIHDIKGENWQLSSGWRSRFSHCLLFNPTDPRSARYN
PLLEVRKGSDEIRDVQNIADILVDPEGALERRNHWEKTSHSLLVGAILHVLYAEEEKTLARVATFLSDPQ
RSFAATLRRMMTTNHLGAANKPQVHPVVASAAREVLNKSENERSGVLSTAMSFLGLYRDPTVAAVTSDCD
WRIADLMDAEWPMSLYLVVPPSDISRTKPLVRLILNQIGRRLTERLEGDPKKSRKHQLLMMLDEFPALGR
LDFFETALAFMAGYGIRAYLIAQSLNQISKAYGDNNAILDNCHLRIAFSSNDERTAKRISDALGTATELR
SMRNYAGHRLAPWLSHVMVSRQETARPLLTPGEVMQLPPADELVLVSGLPPIRAKKLRYYEDHNFTERVL
PSPVLRDGPYADCPMSRPDDWTGQVRGVDRRLASDDESAGAALADEGGVQQQRHPGLPEEHTAVTQEPDQ
DDLSRPADDDSEAMADKRVMDRISTVAGAYGVNEGRGDDKDIVPGF

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(112-559)

  Protein structure



No available structure.



ID   16589 GenBank   ANN60681
Name   t4cp2_A9174_30895_ICEMlSym(NZP2037)-alpha insolico UniProt ID   _
Length   563 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 563 a.a.        Molecular weight: 62321.66 Da        Isoelectric Point: 8.3286

>ANN60681.1 type IV secretion system protein VirD4 [Mesorhizobium loti NZP2037]
MSSTKTTPPNIALSIACSLALGFCAASLYATFRHGGSGEALMTFDVRAFWFETPFYLGFATPVFYRGIAI
VLATSAVVLLIQQVVLRRKLEHHGTARWARVDEMRCTGYLRRYRSVTGPVFGKTSGPFWPGYYLTNGEQP
HSLIVAPTRAGKGVGIVIPTLLTFKGSVIALDVKGELFELTSRARKATGDNVFKFAPLDSERRTNCYNPL
LDLIALPPQLQFTEARRLAANLITAKGEGAEGFVSGARDIFVAGILACIERGTPTIGAVYDLFAQPGEKF
KLFAQLAMETRNKEAQRIFDDMAGNDTKILTSYTSVLGDGGLNLWADPAVKAATSRSDFSVYDLRRRRTC
IYLCVGPNDLEVIAPLIRLFFQQIVSILQRSLPRQDEKNEVLFLLDEFKHLGKLEAIETAITTIAGYKGR
FMLIIQSLSALTGAYGEAGKQNFLSNTGLQVFMATADDETPTYISKAIGEYTFEAKSISYSQARTFDWNI
QNSHQGAPLLRPEQVRLLDEDYEIVLIKGLPPLQLRKVRYYSDRILKRIFESQTGALPEPAPLMEAHPDD
TDG

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(97-540)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6362556..6371613

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A9174_30645 6357612..6357761 - 150 ANN60634 nitrogen fixation protein FixQ -
A9174_30650 6357772..6358503 - 732 ANN60635 cytochrome c oxidase, cbb3-type subunit II -
A9174_30655 6358515..6360125 - 1611 ANN60636 cytochrome c oxidase, cbb3-type subunit I -
A9174_30660 6360255..6360794 + 540 ANN60637 hypothetical protein -
A9174_30665 6360798..6361553 - 756 ANN60638 transcriptional regulator -
A9174_30670 6362298..6362543 - 246 ANN60639 transposase -
A9174_30675 6362556..6363770 - 1215 ANN61830 conjugal transfer protein TrbI virB10
A9174_30680 6363782..6364810 - 1029 ANN60640 P-type conjugative transfer protein TrbG virB9
A9174_30685 6364807..6365532 - 726 ANN60641 conjugal transfer protein TrbF virB8
A9174_30690 6365533..6366855 - 1323 ANN60642 P-type conjugative transfer protein TrbL virB6
A9174_30695 6366887..6367612 - 726 ANN60643 P-type conjugative transfer protein TrbJ virB5
A9174_30700 6367609..6370059 - 2451 ANN60644 conjugal transfer protein TrbE virb4
A9174_30705 6370053..6370325 - 273 ANN60645 conjugal transfer protein virB3
A9174_30710 6370325..6370633 - 309 ANN60646 conjugal transfer protein TrbC virB2
A9174_30715 6370645..6371613 - 969 ANN60647 P-type conjugative transfer ATPase TrbB virB11
A9174_30720 6371610..6372023 - 414 ANN60648 CopG family transcriptional regulator -
A9174_30725 6372142..6374172 - 2031 ANN60649 conjugal transfer protein TraG -
A9174_30730 6374837..6375226 - 390 ANN60650 hypothetical protein -
A9174_30735 6375217..6375624 - 408 ANN60651 hypothetical protein -
A9174_30740 6375919..6376209 + 291 ANN60652 hypothetical protein -

Region 2: 6392300..6401722

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A9174_30790 6388196..6388408 - 213 ANN60661 hypothetical protein -
A9174_30795 6388530..6388778 - 249 ANN60662 hypothetical protein -
A9174_30800 6389646..6392186 + 2541 ANN60663 two-component sensor histidine kinase -
A9174_30805 6392300..6393340 - 1041 ANN60664 P-type DNA transfer ATPase VirB11 virB11
A9174_30810 6393324..6394463 - 1140 ANN60665 type IV secretion system protein VirB10 virB10
A9174_30815 6394460..6395341 - 882 ANN60666 type IV secretion system protein VirB9 virB9
A9174_30820 6395338..6396051 - 714 ANN60667 type IV secretion system protein VirB8 virB8
A9174_30825 6396048..6396206 - 159 ANN60668 type IV secretion system protein VirB7 -
A9174_30830 6396233..6397117 - 885 ANN60669 type IV secretion system protein VirB6 virB6
A9174_30835 6397176..6397856 - 681 ANN60670 type IV secretion system protein VirB5 -
A9174_30840 6397870..6400239 - 2370 ANN60671 type IV secretion system protein VirB4 virb4
A9174_30845 6400239..6400565 - 327 ANN60672 type IV secretion system protein VirB3 virB3
A9174_30850 6400565..6400930 - 366 ANN60673 type IV secretion system protein VirB2 virB2
A9174_30855 6400946..6401722 - 777 ANN60674 lytic transglycosylase virB1
A9174_30860 6401810..6402007 - 198 ANN60675 hypothetical protein -
A9174_30865 6402822..6403505 + 684 ANN60676 DNA-binding response regulator -
A9174_30870 6403474..6403752 + 279 ANN60677 hypothetical protein -
A9174_30875 6403802..6404020 - 219 ANN60678 hypothetical protein -

Host bacterium

ID   146 Element type   ICE (Integrative and conjugative element)
Element name   ICEMlSym(NZP2037)-alpha GenBank   CP016079
Element size   7007326 bp Coordinate of oriT [Strand]   94280..94340 [+]
Host bacterium   Mesorhizobium loti NZP2037 Coordinate of element   6351798..6880279

Cargo genes

Drug resistance gene   -
Virulence gene   gmd
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   fixS, fixI, nifX, fixG, fixP, fixQ, fixO, fixN, nodM, nodD, nolL, nodB, a9174_31165, nodJ, nodI, nodC, nodA, nodS, mlr6097, nifU, nifN, nifE, nifK, nifD, nifH, nifQ, mLTONO_5203, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, fixT, nolK, noeL, nodZ, nodE, nodF, nodU
Anti-CRISPR   AcrIIC1