Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114043
Name   oriT_2011N-4075|unnamed2 in_silico
Organism   Yersinia massiliensis strain 2011N-4075
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP054047 (9025..9112 [-], 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_2011N-4075|unnamed2
TACGGGACAGGATATGTTTTGTAGCACCGCCTGCACGCAGTCGGCCCTACAAAACGACCTGGTCAGGGCAGAGCCCCGACACCCGCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9022 GenBank   WP_172986752
Name   traI_HRD68_RS00695_2011N-4075|unnamed2 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: 73940.23 Da        Isoelectric Point: 7.2343

>WP_172986752.1 TraI/MobA(P) family conjugative relaxase [Yersinia massiliensis]
MIPIVPEKRRDGRSSFIQLVSYLTLRDEVKPDMPISPDNPYIRPSRSKAAIFDRLIDYLDRKASVEEQTV
LAMFDDGTQQIKSGNVVCETNCFSLETASAEMNAVAMQNTRCVDAVYHCILSWREEDTPTDEQIFDSARY
CLKQLGMADHQYVVAVHRDTDNVHCHIAANRVNPKSYRATNLYNDVDTLHKACRHLEMKHGFTPDNGAWK
VNESHQVVRSQNDFKSIPRKAKQLEYYADSESLFSYATGECRQRIGEVVAGDNPSWDAIHTELIRAGLEL
KPKGEGLAIYSREDESLPPIKASSLHPDLTLYCLEETLGKFEPSPEIVTLTDDNDNIIHSNYKREFIYEP
RLHARDNTARIDRRLARADAREDLKARYQAYKSAWIKPKLEGGTLKQRYQNVAKRFAWQKARARIAIGDP
LLRKLTYHIIEVERMKAIAALRIAVKAEKKVFNANPENRRLSYRAWVEQQALNHDQAAIAQLRGWSYRLK
RANKTPPLSENGIRCAAADDCRPFNLEGYDTQINRDGVIQYRHDGIVQVQDRGERIEIANPFISDGQHIA
GAMTIAEEKSGEVMVFEGSRTFVNQACGLVGWFNEGGEKPLPLSDPQQRILAGYEVDRQASSSGGLQPQS
GTDQLHEREQGHKPQGGYRPQ

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(55-320)


  Protein structure



No available structure.




T4CP

ID   10454 GenBank   WP_254230646
Name   trbC_HRD68_RS00680_2011N-4075|unnamed2 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: 81712.34 Da        Isoelectric Point: 6.4374

>WP_254230646.1 F-type conjugative transfer protein TrbC [Yersinia massiliensis]
MAQSVEIDARRVRRSLGYTFINDALLSPFGVQFFLLAGLVMGWIFPASLLISVPGLLLQVMLFSDRPFRM
PLRMPTDVGGIDLTTEREIPKYRNGLWGFFRYVVRTRKYLPAAGVMCLGFARGKALARELWLTLDDTLRH
MLLLATTGSGKTEALLSVFLNAICWGRGICYSDGKGQNSLALAMWSLARRFGREDDFYVLNFMTGGMDKL
LLLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDAGWQDKAKSMNAALVYAVYYKCKKEKRT
ISQTVIQSYLPLRKLAELYLEAKRDGWHKEAYNPLENYFNTLAGFRIELISQPSTWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDINIEDILHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMLNDVLIVKKYSGKFPFAIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHRGEYMT
VNANLLTKWFMALQDEKDTFELAKITGGKGYYAELGAVEQAGGIITPNYEDATNNYIREKDRLDLGDLKE
LNPGEGMISFKSALVPSSAIYIPDDDKMTSALPMRINRFIEVQTPTEAELFALNPTLLRKLPPSAQEIED
ILQRIDEPEDSTHQIGIMDPILKRIVDLTLDLDNRADISYNPTQRGILLFEAAREALHQNKRKWRHQPTP
PKTIRVSKEVAISLADADLQNTISS

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 53234..79109

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HRD68_RS00935 (HRD68_00935) 49050..49472 + 423 WP_172986791 type IV pilus biogenesis protein PilM -
HRD68_RS00940 (HRD68_00940) 49498..51135 + 1638 WP_172986792 PilN family type IVB pilus formation outer membrane protein -
HRD68_RS00945 (HRD68_00945) 51356..52666 + 1311 WP_172986793 type 4b pilus protein PilO2 -
HRD68_RS00950 (HRD68_00950) 52653..53228 + 576 WP_172986794 type IV pilus biogenesis protein PilP -
HRD68_RS00955 (HRD68_00955) 53234..54724 + 1491 WP_172986795 GspE/PulE family protein virB11
HRD68_RS00960 (HRD68_00960) 54721..55845 + 1125 WP_172986796 type II secretion system F family protein -
HRD68_RS00965 (HRD68_00965) 55881..56477 + 597 WP_172986797 type 4 pilus major pilin -
HRD68_RS00970 (HRD68_00970) 56532..57017 + 486 WP_172986798 lytic transglycosylase domain-containing protein virB1
HRD68_RS00975 (HRD68_00975) 57017..57670 + 654 WP_172986799 A24 family peptidase -
HRD68_RS00980 (HRD68_00980) 57667..58857 + 1191 WP_172986800 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HRD68_RS00985 (HRD68_00985) 59199..59867 + 669 WP_172986801 hypothetical protein -
HRD68_RS00990 (HRD68_00990) 59955..60410 + 456 WP_172986802 DotD/TraH family lipoprotein -
HRD68_RS00995 (HRD68_00995) 60407..61195 + 789 WP_172986803 type IV secretory system conjugative DNA transfer family protein traI
HRD68_RS01000 (HRD68_01000) 61215..62372 + 1158 WP_172986804 plasmid transfer ATPase TraJ virB11
HRD68_RS01005 (HRD68_01005) 62372..62638 + 267 WP_172986805 IcmT/TraK family protein traK
HRD68_RS01010 (HRD68_01010) 62697..65885 + 3189 WP_172986806 LPD7 domain-containing protein -
HRD68_RS01015 (HRD68_01015) 65895..66380 + 486 WP_172986807 hypothetical protein traL
HRD68_RS01020 (HRD68_01020) 66465..67139 + 675 WP_172986808 DotI/IcmL/TraM family protein traM
HRD68_RS01025 (HRD68_01025) 67142..68152 + 1011 WP_172986809 DotH/IcmK family type IV secretion protein traN
HRD68_RS01030 (HRD68_01030) 68157..69383 + 1227 WP_172986810 conjugal transfer protein TraO traO
HRD68_RS01035 (HRD68_01035) 69383..70120 + 738 WP_172986811 hypothetical protein traP
HRD68_RS01040 (HRD68_01040) 70129..70659 + 531 WP_172986812 conjugal transfer protein TraQ traQ
HRD68_RS01045 (HRD68_01045) 70674..71078 + 405 WP_172986813 DUF6750 family protein traR
HRD68_RS01050 (HRD68_01050) 71170..71775 + 606 WP_172986814 hypothetical protein traT
HRD68_RS01055 (HRD68_01055) 71778..74852 + 3075 WP_172986815 ATP-binding protein traU
HRD68_RS01060 (HRD68_01060) 75043..76272 + 1230 WP_172986816 conjugal transfer protein TraW traW
HRD68_RS01065 (HRD68_01065) 76265..76864 + 600 WP_172986817 conjugal transfer protein TraX -
HRD68_RS01070 (HRD68_01070) 76998..79109 + 2112 WP_254230645 DotA/TraY family protein traY

Host bacterium

ID   14478 GenBank   NZ_CP054047
Plasmid name   2011N-4075|unnamed2 Incompatibility group   -
Plasmid size   79154 bp Coordinate of oriT [Strand]   9025..9112 [-]
Host baterium   Yersinia massiliensis strain 2011N-4075

Cargo genes

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