Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106247
Name   oriT_pRWS292.s5 in_silico
Organism   Klebsiella pneumoniae strain WS_29-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP110528 (6836..8542 [-], 1707 nt)
oriT length   1707 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 1707 nt

>oriT_pRWS292.s5
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCGCCGCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGACCCATTAAACACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTCAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGTAGAGTGAAAGGATAACTGACATATCCATTTTTATATGAGATGTTCGGAATGATAAATGAAAATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGTTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAGGTTGACGCAAACAAATTAATACGCTATGCCGAAAGCAAAGGCACAAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCCGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACAATACACAGACTAACAGGCTACGGGATTTTAAGGCTTCATTATTTTTGGCTTCAATTTCAAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   4207 GenBank   WP_094309419
Name   t4cp2_OM422_RS30345_pRWS292.s5 insolico UniProt ID   _
Length   578 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 578 a.a.        Molecular weight: 65670.93 Da        Isoelectric Point: 7.4566

>WP_094309419.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIIFTAAGLIFHIAVRRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDSIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINATKGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL

  Protein domains


Predicted by InterproScan.

Helicase HerA, central domain (DUF87)

(174-280)

TraM recognition site of TraD and TraG (TraG-D_C)

(399-490)

  Protein structure



No available structure.



ID   4208 GenBank   WP_012457110
Name   t4cp2_OM422_RS30400_pRWS292.s5 insolico UniProt ID   _
Length   912 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 912 a.a.        Molecular weight: 103056.99 Da        Isoelectric Point: 7.4625

>WP_012457110.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacterales]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

Type IV secretory pathway, VirB3-like protein (VirB3)

(3-79)

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

(269-470)

TraG P-loop domain (P-loop_TraG)

(535-813)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 4883..18432

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OM422_RS30310 (OM422_30295) 258..608 + 351 WP_012457127 type II toxin-antitoxin system RelE/ParE family toxin -
OM422_RS30315 (OM422_30300) 611..910 + 300 WP_012457126 helix-turn-helix domain-containing protein -
OM422_RS30320 (OM422_30305) 972..1121 - 150 WP_162262154 hypothetical protein -
OM422_RS30325 (OM422_30310) 1284..1949 - 666 WP_094309421 hypothetical protein -
OM422_RS30330 (OM422_30315) 2334..3302 + 969 WP_012457123 zincin-like metallopeptidase domain-containing protein -
OM422_RS30335 (OM422_30320) 3486..4016 - 531 WP_012457122 phospholipase D family protein -
OM422_RS30340 (OM422_30325) 4119..4874 - 756 WP_023316386 MobC family replication-relaxation protein -
OM422_RS30345 (OM422_30330) 4883..6619 - 1737 WP_094309419 type IV secretion system DNA-binding domain-containing protein virb4
OM422_RS30350 (OM422_30335) 7400..7705 - 306 WP_094309429 dpoa decarboxylase -
OM422_RS30355 (OM422_30340) 7739..8044 - 306 WP_012457118 hypothetical protein -
OM422_RS30360 (OM422_30345) 8080..8478 - 399 WP_012457117 cag pathogenicity island Cag12 family protein -
OM422_RS30365 (OM422_30350) 8475..9500 - 1026 WP_012457116 P-type DNA transfer ATPase VirB11 virB11
OM422_RS30370 (OM422_30355) 9490..10758 - 1269 WP_139968916 VirB10/TraB/TrbI family type IV secretion system protein virB10
OM422_RS30375 (OM422_30360) 10805..11713 - 909 WP_012457114 P-type conjugative transfer protein VirB9 virB9
OM422_RS30380 (OM422_30365) 11710..12393 - 684 WP_094309417 type IV secretion system protein virB8
OM422_RS30385 (OM422_30370) 12615..13691 - 1077 WP_012457112 type IV secretion system protein virB6
OM422_RS30390 (OM422_30375) 13703..13930 - 228 WP_004178109 EexN family lipoprotein -
OM422_RS30395 (OM422_30380) 13940..14650 - 711 WP_012457111 type IV secretion system protein -
OM422_RS30400 (OM422_30385) 14669..17407 - 2739 WP_012457110 VirB3 family type IV secretion system protein virb4
OM422_RS30405 (OM422_30390) 17420..17725 - 306 WP_012457109 TrbC/VirB2 family protein virB2
OM422_RS30410 (OM422_30395) 17722..18432 - 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
OM422_RS30415 (OM422_30400) 18431..18553 + 123 WP_255093128 hypothetical protein -
OM422_RS30420 (OM422_30405) 18550..18768 - 219 WP_032722781 hypothetical protein -
OM422_RS30425 (OM422_30410) 18773..18988 - 216 WP_004178170 hypothetical protein -
OM422_RS30430 (OM422_30415) 19060..19515 - 456 WP_009309974 transcription termination/antitermination NusG family protein -
OM422_RS30435 (OM422_30420) 19769..20128 + 360 WP_012457108 helix-turn-helix transcriptional regulator -
OM422_RS30440 (OM422_30425) 20592..21293 + 702 WP_258549312 RepA family replication protein -
OM422_RS30445 (OM422_30430) 22158..22487 + 330 WP_000493286 type II toxin-antitoxin system RelE/ParE family toxin -
OM422_RS30450 (OM422_30435) 22468..22749 + 282 WP_000780222 helix-turn-helix transcriptional regulator -

Host bacterium

ID   6684 GenBank   NZ_CP110528
Plasmid name   pRWS292.s5 Incompatibility group   IncFII
Plasmid size   41699 bp Coordinate of oriT [Strand]   6836..8542 [-]
Host baterium   Klebsiella pneumoniae strain WS_29-2

Cargo genes

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