Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121802
Name   oriT_pDsulf-L2-2 in_silico
Organism   Nitratidesulfovibrio vulgaris strain L2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP116247 (90678..90814 [-], 137 nt)
oriT length   137 nt
IRs (inverted repeats)      28..33, 37..42  (ACATGC..GCATGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 137 nt

>oriT_pDsulf-L2-2
CGAATGGGCAGGCGGGGATTGGCAGGAACATGCGTAGCATGTGTATGACAATCCGCATCCTGTATTGCTCAACCACTCTACTATCATATCAGCAGTTTAGGTGCACGGGACGCACTTTGCAACAAGCATAAAAGGCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13762 GenBank   WP_271371440
Name   traI_PH214_RS16390_pDsulf-L2-2 insolico UniProt ID   _
Length   521 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 521 a.a.        Molecular weight: 59553.96 Da        Isoelectric Point: 9.6783

>WP_271371440.1 TraI/MobA(P) family conjugative relaxase [Nitratidesulfovibrio vulgaris]
MIVKKVPNPKKSASKAQRIGQLTSYVRSPESESPQEKCLYAGARGFMMDDPKSQTAEMIALSQEAVRSKD
TINHYVLSWREGEQPSPEQVEEAVSIFMDELGWKDHQAIYGLHSDTDNIHLHIVINRVHPETLKIVEKNR
GFDIELAHKAIARIEHAQGWQREQNGRYQVLENGELGRAPYDPEKPRQPDQKKRDMENRTGEKSAHRIAI
EDGAAIIKQAQTWEQLHRELAAKGMRYEKTGSGATVFVGDVGVKASDVDRNASLAKMQKRLGEYQPAPQR
QQVAPREPEPIKPDVPGWKDYITGRKAHYAEKNADKLAQDKRQEQERKQLAEQQKARRDELMRGNWKGKG
EVLNAMRSVIAAEQAAEKAALKEKHQKEREQHRQRFRPYPDLEQWQRMQKSPELAEQWRHRASEPQRIEG
DRSEPPTPRDIRAYQPEIVGQQVHYSRKEEAGRGGGVSFVDKGKSIDIHDWRNRDSTLAALQLSAQKWGS
FTVMGNDEYKAMCGKLAAEHGFKGSPQKKEI

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(45-274)

Large polyvalent protein-associated domain 7 (LPD7)

(439-515)


  Protein structure



No available structure.




T4CP

ID   16085 GenBank   WP_271371442
Name   t4cp2_PH214_RS16445_pDsulf-L2-2 insolico UniProt ID   _
Length   841 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 841 a.a.        Molecular weight: 91618.00 Da        Isoelectric Point: 4.9789

>WP_271371442.1 FtsK/SpoIIIE domain-containing protein [Nitratidesulfovibrio vulgaris]
MRSDHHFEGLTPDQEQDLNQLHRDTRSRGQRFWDFAMSRSGNLVLLLGLAMSSLVYVSLVFPSLFCAVVL
FWGRARLAKTDRLPFRVPMAAGVEDPGNPHPGRRKYAKASGIFFIGNEIGSGKELWLTAKDVLTHMMILG
TTGSGKSETMVSLTFNALAMASGCFYIDPKAAPKLAHQIYTLARLVGRDDDFRVLNFATDKRPDRQARKP
GRQTNTTNPFSKGTADQLTQLLVALIAKSEGGNAIFAQNAQTLITGVLYALVELRDRGELELSIDTIRRY
LDVNKCDELARRKDLSETSRSAMHSAMATLGWNEQQPIDKQQKAMEQFGFARSYFGLPLANLADTYGHLY
MTPYGEVDMEDIILQRRVLIVLLPALEMAPQQIESLGKICLSAVKNACAVGLGDHIEGTNEDVLDSLPVD
SPVPFLSSTDEYAAITTPGYAEVFTQGRGLGIGGILGSQDYGGIAGKDPTGAKQFVANTKIKLFMCQEDG
ADTLQLVNQIAQKGLALQTSGYAVDKNSGTTDYLDTLSTQLREVDRIPFRDLNRQIEGEFIGFFKSQIVR
GESFYTDLPLKGGQLRIGQMVTVQKPDARQLSARLGELHDLSTKLAEAIRANEPMRPAHIGQALMTLGKQ
LQGLSQAFATVPEGRQEQAICAVLEWGRMYEAGIAGFVANRTQQRDSARRKQEQMNSQGLVEIGLPESPL
PQAPAPASVQSRLRIADVPIVPSTAEETPQGVAMSSSADPDALNVTAPEKQDEDGVPVGLPGLALLEQAW
GQDQGDSTVHEDIVAGEIALGRSPAEAEEIAEEANTRIATHLGYPAPPVPEKLTEEEGEALTKAIELLLA
D

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(107-162)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2768..30781

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PH214_RS15945 (PH214_15945) 881..2314 - 1434 WP_271371495 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
PH214_RS15950 (PH214_15950) 2768..3724 - 957 WP_271371447 ATPase, T2SS/T4P/T4SS family virB11
PH214_RS15955 (PH214_15955) 3734..4270 - 537 WP_271371448 type 4 pilus major pilin -
PH214_RS15960 (PH214_15960) 4294..5397 - 1104 WP_271371449 type II secretion system F family protein -
PH214_RS15965 (PH214_15965) 5400..7061 - 1662 WP_271371450 GspE/PulE family protein virB11
PH214_RS15970 (PH214_15970) 7075..7566 - 492 WP_271371451 type IV pilus biogenesis protein PilP -
PH214_RS15975 (PH214_15975) 7547..8857 - 1311 WP_271371452 type 4b pilus protein PilO2 -
PH214_RS15980 (PH214_15980) 8863..10491 - 1629 WP_271371454 secretin N-terminal domain-containing protein -
PH214_RS15985 (PH214_15985) 11413..11679 - 267 WP_271371455 IcmT/TraK family protein traK
PH214_RS15990 (PH214_15990) 11672..12790 - 1119 WP_271371456 type IV pilus twitching motility protein PilT virb4
PH214_RS15995 (PH214_15995) 12787..13575 - 789 WP_271371457 type IV secretory system conjugative DNA transfer family protein traI
PH214_RS16000 (PH214_16000) 13587..14069 - 483 WP_271371458 DotD/TraH family lipoprotein -
PH214_RS16005 (PH214_16005) 14239..14934 - 696 WP_271371460 LexA family transcriptional regulator -
PH214_RS16010 (PH214_16010) 15217..15474 + 258 WP_271371461 hypothetical protein -
PH214_RS16015 (PH214_16015) 15622..16392 + 771 WP_271371462 DotH/IcmK family type IV secretion protein traN
PH214_RS16020 (PH214_16020) 16812..17534 + 723 WP_271371464 DotG/IcmE/VirB10 family protein traO
PH214_RS16025 (PH214_16025) 17556..18548 + 993 WP_271371465 hypothetical protein traP
PH214_RS16030 (PH214_16030) 18562..19083 + 522 WP_271371466 hypothetical protein traQ
PH214_RS16035 (PH214_16035) 19166..19534 + 369 WP_271371467 hypothetical protein traR
PH214_RS16040 (PH214_16040) 20268..21572 + 1305 WP_271371468 hypothetical protein -
PH214_RS16045 (PH214_16045) 21583..22218 + 636 WP_271371469 DotI/IcmL/TraM family protein traM
PH214_RS16050 (PH214_16050) 22231..25263 + 3033 WP_271371470 hypothetical protein traU
PH214_RS16055 (PH214_16055) 25326..25787 + 462 WP_271371471 hypothetical protein -
PH214_RS16060 (PH214_16060) 25797..26921 + 1125 WP_271371472 hypothetical protein traW
PH214_RS16065 (PH214_16065) 26952..28142 + 1191 WP_271371473 hypothetical protein -
PH214_RS16070 (PH214_16070) 28341..28625 + 285 WP_271371474 hypothetical protein -
PH214_RS16075 (PH214_16075) 28628..30781 + 2154 WP_271371475 DotA/TraY family protein traY
PH214_RS16080 (PH214_16080) 30783..31082 - 300 WP_271371476 hypothetical protein -
PH214_RS16085 (PH214_16085) 31459..32274 + 816 WP_271371477 ParA family protein -
PH214_RS16090 (PH214_16090) 33203..33910 + 708 WP_271371478 hypothetical protein -
PH214_RS16095 (PH214_16095) 34067..34312 + 246 WP_271371479 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
PH214_RS16100 (PH214_16100) 34341..34670 + 330 WP_271371480 type II toxin-antitoxin system PemK/MazF family toxin -

Host bacterium

ID   22229 GenBank   NZ_CP116247
Plasmid name   pDsulf-L2-2 Incompatibility group   -
Plasmid size   109048 bp Coordinate of oriT [Strand]   90678..90814 [-]
Host baterium   Nitratidesulfovibrio vulgaris strain L2

Cargo genes

Drug resistance gene   sul1, qacE, lnu(F), aadA2, blaOXA-21, tet(C)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -