Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107915
Name   oriT_pKM0706a in_silico
Organism   Serratia sp. K-M0706
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP124751 (43794..43877 [+], 84 nt)
oriT length   84 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 84 nt

>oriT_pKM0706a
ACGGGACAGGATATGTTTTGTAGCACCGCCTGCACGCAGTCGGCTCTACAAAACGTCCTGGTCAGGGCAGAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5308 GenBank   WP_128884968
Name   Relaxase_SSARUM_RS24305_pKM0706a insolico UniProt ID   _
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 73003.42 Da        Isoelectric Point: 7.5269

>WP_128884968.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Serratia]
MIPIVPEKRRDGRSSFIQLVSYLTLRDEDKPDLPISPENPYVRPSRSKAAIFDRLVGYLDRNAGGGQQTL
LAMFADGTQQVKSGEVVCETNCFSLETASAEMNAVAMQNTRCVDPVYHCILSWREEDTPTDQQIFESARY
CINQLGMADHQYVFAVHRDTDNVHCHIAVNRIHPESYRAANMYKDVDTLHKACRHLELKHGFTPDNGAWK
VNEHQQVVRSQNEFKCIPRKARQLEYYADSESLFSYAVGECRQAIGDIMADPERLSWQNLHNELNRAGLV
LKQKGEGLAIYSIQDSSLPPIKASGLHPDLTRSCMEPYLGEFTSALDVDAVASPKHPEYVYDPRFHARDL
MARVERRQARAEARADLKARYQAYKSAWVRPKLDADEIKARYKNMSKRFAWRKAKARVELRDPLLRKLTY
HIIEVERMKAMAALRLAIKEERQAFKAAPENRRLSYRGWVEQQALMHDQAAIAQLRGWSYRLKRSSLTPS
VSLNGIRFAVSDDSKPLAIDGYQTRIMRDGVVQYVQNGVVQLQDRGERIEVADSQVMDGQHIITGLVIAQ
SKSGEEMVLEGDRQYVQQSCELVSWFNEESGTSLPLTETSQRTLAGYGSLPTENSHGATDSSVNEQRELD
GYIQRPNGPRPH

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(87-313)


  Protein structure



No available structure.




T4CP

ID   5568 GenBank   WP_282495020
Name   trbC_SSARUM_RS24320_pKM0706a insolico UniProt ID   _
Length   726 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 726 a.a.        Molecular weight: 81568.14 Da        Isoelectric Point: 7.9811

>WP_282495020.1 MULTISPECIES: F-type conjugative transfer protein TrbC [unclassified Serratia (in: enterobacteria)]
MSQPVEVDVRRVRRPLGQTIIQDALLSPIGVQLSLAGAIGLAIHSPASLLLTTPAALLQLMLFGDQPFRM
PLRLPTDIGGMDLTTEREMPKYRNGIGGFFRYVVRTRKYQRAAGVMCLGFARGKALARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNAICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGSDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLAALVYAVYYKCKREKRR
ISQRVIQEYLPLRKLAELYLEAKRDGWHQEAYNPLENYFNTLAGFRIELISRPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDVDIEDVLHNDRILCTTIPALELSKGEAANIGKLYISAIRMTMARDLGF
ELEGMMNDVLIVKKYKGNFPFPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFELARITGGKGYYSELGAVEQQGGLITPHFEDAGSNVIREKDRLDLGDLKD
MNPGEGMISFKSALIPSNAIYIQDDDKMTSALPMRINRFVNLDMPTEAELLDANPTLKKKLPPSAQEVET
ILTRLESPPSQTTCNGLMDPVLQSVVALSLDLNHRADVSYTSAQRGILLFEAARVALKLHKRRWKQQPTA
PKPIRVSKDIAKALATSEHHREERYG

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49152..77012

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SSARUM_RS24305 (SSARUM_004861) 44258..46186 + 1929 WP_128884968 TraI/MobA(P) family conjugative relaxase -
SSARUM_RS24310 (SSARUM_004862) 46239..46556 - 318 WP_128884969 hypothetical protein -
SSARUM_RS24315 (SSARUM_004863) 46553..46891 - 339 WP_128884970 phospholipase D-like domain-containing protein -
SSARUM_RS24320 (SSARUM_004864) 46915..49095 - 2181 WP_282495020 F-type conjugative transfer protein TrbC -
SSARUM_RS24325 (SSARUM_004865) 49152..50090 - 939 WP_128884971 hypothetical protein trbB
SSARUM_RS24330 (SSARUM_004866) 50115..51440 - 1326 WP_147823515 conjugal transfer protein TrbA trbA
SSARUM_RS24335 (SSARUM_004867) 51587..52165 - 579 WP_128884972 hypothetical protein -
SSARUM_RS24340 (SSARUM_004868) 52162..54306 - 2145 WP_128884973 DotA/TraY family protein traY
SSARUM_RS24345 (SSARUM_004869) 54353..54922 - 570 WP_128884974 conjugal transfer protein TraX -
SSARUM_RS24350 (SSARUM_004870) 54915..56135 - 1221 WP_147823517 conjugal transfer protein TraW -
SSARUM_RS24355 (SSARUM_004871) 56266..59340 - 3075 WP_128884975 ATP-binding protein traU
SSARUM_RS24360 (SSARUM_004872) 59343..59948 - 606 WP_128884976 hypothetical protein traT
SSARUM_RS24365 (SSARUM_004873) 60009..60413 - 405 WP_128884977 DUF6750 family protein traR
SSARUM_RS24370 (SSARUM_004874) 60429..60959 - 531 WP_128884978 conjugal transfer protein TraQ traQ
SSARUM_RS24375 (SSARUM_004875) 60968..61738 - 771 WP_128884979 hypothetical protein traP
SSARUM_RS24380 (SSARUM_004876) 61738..62952 - 1215 WP_128884980 conjugal transfer protein TraO traO
SSARUM_RS24385 (SSARUM_004877) 62957..63946 - 990 WP_128884981 DotH/IcmK family type IV secretion protein traN
SSARUM_RS24390 (SSARUM_004878) 63948..64619 - 672 WP_128884982 DotI/IcmL/TraM family protein traM
SSARUM_RS24395 (SSARUM_004879) 64707..65186 - 480 WP_238476110 hypothetical protein traL
SSARUM_RS24400 (SSARUM_004880) 65195..68425 - 3231 WP_128884983 LPD7 domain-containing protein -
SSARUM_RS24405 (SSARUM_004881) 68439..68738 - 300 WP_128884984 IcmT/TraK family protein traK
SSARUM_RS24410 (SSARUM_004882) 68735..69895 - 1161 WP_128884985 plasmid transfer ATPase TraJ virB11
SSARUM_RS24415 (SSARUM_004883) 69909..70697 - 789 WP_128884986 type IV secretory system conjugative DNA transfer family protein traI
SSARUM_RS24420 (SSARUM_004884) 70694..71152 - 459 WP_240039789 DotD/TraH family lipoprotein -
SSARUM_RS24425 (SSARUM_004885) 71178..72578 - 1401 WP_128884987 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
SSARUM_RS24430 (SSARUM_004886) 72575..73243 - 669 WP_128884988 A24 family peptidase -
SSARUM_RS24435 (SSARUM_004887) 73243..73728 - 486 WP_128884989 lytic transglycosylase domain-containing protein virB1
SSARUM_RS24440 (SSARUM_004888) 73783..74373 - 591 WP_128884990 type 4 pilus major pilin -
SSARUM_RS24445 (SSARUM_004889) 74410..75525 - 1116 WP_128884991 type II secretion system F family protein -
SSARUM_RS24450 (SSARUM_004890) 75522..77012 - 1491 WP_128884992 ATPase, T2SS/T4P/T4SS family virB11
SSARUM_RS24455 (SSARUM_004891) 77018..77590 - 573 WP_128884993 type IV pilus biogenesis protein PilP -
SSARUM_RS24460 (SSARUM_004892) 77577..78875 - 1299 WP_128884994 type 4b pilus protein PilO2 -
SSARUM_RS24465 (SSARUM_004893) 78879..80510 - 1632 WP_128884995 PilN family type IVB pilus formation outer membrane protein -
SSARUM_RS24470 (SSARUM_004894) 80532..80954 - 423 WP_128884996 type IV pilus biogenesis protein PilM -
SSARUM_RS24475 (SSARUM_004895) 80954..81934 - 981 WP_128884997 toxin co-regulated pilus biosynthesis Q family protein -

Host bacterium

ID   8350 GenBank   NZ_CP124751
Plasmid name   pKM0706a Incompatibility group   -
Plasmid size   83787 bp Coordinate of oriT [Strand]   43794..43877 [+]
Host baterium   Serratia sp. K-M0706

Cargo genes

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