Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101964
Name   oriT_punknown1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Newport strain SN2667_100
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MBOT01000011 (42971..43051 [-], 81 nt)
oriT length   81 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 81 nt

>oriT_punknown1
GGGACAAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGCCCTACAAAACTCTTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1581 GenBank   WP_024153770
Name   Relaxase_BA752_RS09660_punknown1 insolico UniProt ID   A0A1S0Z997
Length   651 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 651 a.a.        Molecular weight: 75042.61 Da        Isoelectric Point: 7.1085

>WP_024153770.1 TraI/MobA(P) family conjugative relaxase [Salmonella enterica]
MIGRIPPKRRDGKSSFLKLVAYSVIRDEDKPDVPLEPDHPDWRRPKSKDEIFNRLTDYITRSGDESIMQT
LSTDEYGRQRVLFDGVMCETNTFSLATAAIEMNAVALQNTRCKDPVLHYFLSWPVTDNPTHDQIFDSVRQ
SLIEFGMEEHQYVAAIHTDTNNIHCHIAANRIHPETYKAADDSYTFRKLQRVLRKLELKHNWTPTNGKRD
EPPVPQGAVAMEYYADQESLHSYAMRTCADDMEKLIVREDLTWKDVHKLLVRQGLKIDRKGKGLAIWSLD
EPDITPIKASNLHPDLTLSCLEDDLGSFERMEDVGRYTLDENDAGEDALIHMYRYEPALHKRDEGARAAR
REARAAARRELFDRYKKYSDGFKRPKMESTEATKQFKALSNRYAWKKEQVRYVFDDPLIRKVVYRVLEAE
RQKEYEALKAQIKKEKAAFYKDPVNRKLTRQEWVAQQALKQDQAAISCLRGWSYRYKRNALTPSLSENAI
VCAVADDIRPYNVQSYETSVNRDGTIQYKQNGIVQIQDKGDRIEIADPYTQGGQHIAGAMVIAEEKSGEK
MQFSGDSAFVGAACNIVPWFNSGGEKPLPLTDPRQRVMAGYDKPETHSDRPVMTHRIVDEETYLASRQGV
RAVDDRETDELKPEKNTHRLR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(88-305)


  Protein structure


Source ID Structure
AlphaFold DB A0A1S0Z997


T4CP

ID   1247 GenBank   WP_086375278
Name   trbC_BA752_RS09595_punknown1 insolico UniProt ID   _
Length   731 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 731 a.a.        Molecular weight: 82927.36 Da        Isoelectric Point: 8.0339

>WP_086375278.1 F-type conjugative transfer protein TrbC [Salmonella enterica]
MTTGNTQPVDKQRVRQITQSTWIDDYLLAPATVQAGLVVILVLTFLRTWILLPGVFATSIWLLTFFGQLF
RMPLRMPKDIGGFDMTTERENALEFKGPMGLFRFTRRRLTWEKSAGIMCLGHARRRFLGRELWLTRDDCL
RHMQLLATTGSGKTEALLSLQLNSLCMGRGMMFSDGKAETKLAYAIWSLMRRYGQEDNYYVLNFLNGGRD
RFDELLGNDRTRPQSNSINFFSDATATFIIQLMESLLPQVGSNEAGWQDKAKPMLYGLVYALYYKCRKDN
IRLSQSMIQKHLPLKEMADLYIEAKQNGWHDEAVSALEAYLSNLAGFRMELVSKSSEWDQGVYDQHGFLT
QQFSRMLAMFNDVYGHIFSSDAGDIDLSDVLHNDRTLVVLIPALELSKSESANLGKLYISAKRMVIARDL
GYQLEGKSRDVLTSAKFYNPFPFPDVHDELGSYFAPGMDDLAAQMRSLGVMLVISAQDIQRFVAQFKGEY
QTVNANTLVKWFMAMQDEKDTFELAKATAGKDYYAELGEMKRTPGTVSSSYEEASTTYIREKNRITLDEL
KDLNPGEGFISFKSALVPGSAIYIPDSEKISSKLSLRINRFIDTGKPTEADLVAQNPHLRRLLPPSELEV
SMLLQRTDEIIAGSETHTLPPLMDPILARLMKVALDLDNRCDISYTPTQRGILLFEAARDVLKKRGKKWF
TVKTQPNPLRVSDAMAHRLARKSTAFMSQEQ

  Protein domains


Predicted by InterproScan.

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

(448-563)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1944..27015

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BA752_RS09460 (BA752_22635) 213..1367 + 1155 WP_000089546 site-specific integrase -
BA752_RS09465 (BA752_22640) 1492..1947 + 456 WP_000775487 DotD/TraH family lipoprotein -
BA752_RS09470 (BA752_22645) 1944..2765 + 822 WP_000213330 type IV secretory system conjugative DNA transfer family protein traI
BA752_RS09475 (BA752_22650) 2762..3931 + 1170 WP_024153796 plasmid transfer ATPase TraJ virB11
BA752_RS09480 (BA752_22655) 3921..4187 + 267 WP_024153795 IcmT/TraK family protein traK
BA752_RS09485 (BA752_22660) 4199..7648 + 3450 WP_079918951 DUF5710 domain-containing protein -
BA752_RS09490 (BA752_22665) 7664..8134 + 471 WP_000735118 hypothetical protein traL
BA752_RS09495 (BA752_22670) 8197..8874 + 678 WP_024153792 DotI/IcmL/TraM family protein traM
BA752_RS09500 (BA752_22675) 8871..9899 + 1029 WP_024153791 DotH/IcmK family type IV secretion protein traN
BA752_RS09505 (BA752_22680) 9899..11101 + 1203 WP_024153790 conjugal transfer protein TraO traO
BA752_RS09510 (BA752_22685) 11098..11853 + 756 WP_079918952 hypothetical protein traP
BA752_RS09515 (BA752_22690) 11863..12393 + 531 WP_000348307 conjugal transfer protein TraQ traQ
BA752_RS09520 (BA752_22695) 12409..12807 + 399 WP_000404336 DUF6750 family protein traR
BA752_RS09525 (BA752_22700) 12865..13317 + 453 WP_024153787 hypothetical protein -
BA752_RS09530 (BA752_22705) 13422..13724 + 303 WP_024153786 hypothetical protein -
BA752_RS09535 (BA752_22710) 13780..14388 + 609 WP_024153785 hypothetical protein traT
BA752_RS09540 (BA752_22715) 14385..17447 + 3063 WP_024153784 conjugal transfer protein traU
BA752_RS09545 (BA752_22720) 17466..18686 + 1221 WP_086375276 conjugal transfer protein TraW traW
BA752_RS09550 (BA752_22725) 18683..19201 + 519 WP_024153782 conjugal transfer protein TraX -
BA752_RS09555 (BA752_22730) 19253..21385 + 2133 WP_024153781 DotA/TraY family protein traY
BA752_RS09560 (BA752_22735) 21396..21941 + 546 WP_024153780 hypothetical protein -
BA752_RS09565 (BA752_22740) 22043..22558 - 516 WP_023228531 GNAT family N-acetyltransferase -
BA752_RS09570 (BA752_22745) 22542..22835 - 294 WP_000987497 DUF1778 domain-containing protein -
BA752_RS27325 22924..23082 - 159 WP_001644829 hypothetical protein -
BA752_RS09580 (BA752_22755) 23307..23960 + 654 WP_086375277 DUF5710 domain-containing protein -
BA752_RS27920 24368..24463 + 96 WP_000247680 DinQ-like type I toxin DqlB -
BA752_RS09585 (BA752_22760) 24607..25905 + 1299 WP_024153777 hypothetical protein trbA
BA752_RS09590 (BA752_22765) 25996..27015 + 1020 WP_024153776 thioredoxin fold domain-containing protein trbB
BA752_RS09595 (BA752_22770) 27002..29197 + 2196 WP_086375278 F-type conjugative transfer protein TrbC -
BA752_RS09600 (BA752_22775) 29256..29795 + 540 WP_026037017 phospholipase D family protein -
BA752_RS09605 (BA752_22780) 29890..30453 + 564 WP_023230347 DUF2913 family protein -
BA752_RS09610 (BA752_22785) 31022..31612 - 591 WP_242439237 dienelactone hydrolase family protein -

Host bacterium

ID   2408 GenBank   NZ_MBOT01000011
Plasmid name   punknown1 Incompatibility group   -
Plasmid size   67485 bp Coordinate of oriT [Strand]   42971..43051 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Newport strain SN2667_100

Cargo genes

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