Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101672
Name   oriT_pA2sk2_3 in_silico
Organism   Escherichia coli strain CPE3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JACYGM010000007 (5124..5215 [-], 92 nt)
oriT length   92 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 92 nt

>oriT_pA2sk2_3
CGGGGTGTCGGGGCTAAGCCCTGACCAGGTGGTAATCGTATAGCCGTGCGTGCGCGGTTATACGATTACACATCCTGTCCCGTTTTTCAGGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1447 GenBank   WP_052984760
Name   Relaxase_IYX66_RS25430_pA2sk2_3 insolico UniProt ID   _
Length   906 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 906 a.a.        Molecular weight: 104972.65 Da        Isoelectric Point: 8.1414

>WP_052984760.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPKKRRDGKSSFEDLIAYTSVRDDVPEDELRPDTEMKAEIPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCLSLESAAEEMQKAAELAHFSKDDTDPVFHYILSWPAHESPRSEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINCLPWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNVWRRGKKQTFREYIDQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDKAREGIALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPAMARNGELKSCLAVHRTLAEAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVVPGERFRGHSIGSQPVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
GLIQCRSLIEEMIADGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAAADIFERVKPECRYNPELAASDEVEPGFRRDPEIRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNVDRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLNLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLQQEKTWEPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure



No available structure.




Auxiliary protein

ID   574 GenBank   WP_001291057
Name   WP_001291057_pA2sk2_3 insolico UniProt ID   A0A142CND4
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12596.69 Da        Isoelectric Point: 10.7335

>WP_001291057.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSEKKTRSGSEKRQKNVLIAVRFSPEEAEIVKEKAEKNGLTVSTLIRKTVLGKQINARIDEDFLKELMRL
GRLQKHLFVEGKRTGDKEYAEVLVAITELANTLRRNLMGR

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF6290) (DUF6290)

(19-66)


  Protein structure


Source ID Structure
AlphaFold DB A0A142CND4


T4CP

ID   1121 GenBank   WP_115759533
Name   trbC_IYX66_RS25435_pA2sk2_3 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 86950.82 Da        Isoelectric Point: 6.5117

>WP_115759533.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNITGLCLAGSIITALIWPLALPVCLLFTLVTSVIFMLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETFPARGIFYVGYRRINDIGRELWLSMDDLTRHIM
FFATTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFVTQQSMLLARDLGYRLE
GTDAQTLEVKKYKGSFPYICILDEVGAYYTDRIAVEATQVRSLDFSLIMTAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGVMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYISVEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTAKPSRKRRKNRTEPYRIIDTFQRQLATAQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKVILNTLLPLEILLPVAENNKSQTINNDHPQKSCGAQPTTDEKY

  Protein domains


Predicted by InterproScan.

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

(439-528)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10796..48144

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IYX66_RS25435 8515..10815 - 2301 WP_115759533 F-type conjugative transfer protein TrbC -
IYX66_RS25440 10796..11920 - 1125 WP_000152382 DsbC family protein trbB
IYX66_RS25445 11917..13215 - 1299 WP_194846364 IncI1-type conjugal transfer protein TrbA trbA
IYX66_RS26890 13772..13867 + 96 WP_001388983 DinQ-like type I toxin DqlB -
IYX66_RS26895 14456..14551 + 96 WP_001363141 DinQ-like type I toxin DqlB -
IYX66_RS25455 14614..14790 - 177 WP_001054907 hypothetical protein -
IYX66_RS25460 14940..15407 - 468 WP_000598962 thermonuclease family protein -
IYX66_RS25465 15565..16188 + 624 WP_001155252 helix-turn-helix domain-containing protein -
IYX66_RS25470 16386..16601 - 216 WP_000266543 hypothetical protein -
IYX66_RS25475 16605..16973 - 369 WP_001345852 hypothetical protein -
IYX66_RS25480 17272..17514 - 243 WP_001363144 hypothetical protein -
IYX66_RS26980 17844..17924 + 81 Protein_22 Hok/Gef family protein -
IYX66_RS25485 18064..18714 - 651 WP_016237948 plasmid IncI1-type surface exclusion protein ExcA -
IYX66_RS25490 18803..20968 - 2166 WP_000691810 DotA/TraY family protein traY
IYX66_RS25495 21043..21612 - 570 WP_000650752 conjugal transfer protein TraX -
IYX66_RS25500 21609..22814 - 1206 WP_001189549 conjugal transfer protein TraW traW
IYX66_RS25505 22772..23392 - 621 WP_021516921 hypothetical protein traV
IYX66_RS25510 23392..26436 - 3045 WP_021516922 hypothetical protein traU
IYX66_RS25515 26731..27549 - 819 WP_000753550 hypothetical protein traT
IYX66_RS26900 27464..27715 - 252 WP_001277573 hypothetical protein -
IYX66_RS25525 27772..28170 - 399 WP_000088813 DUF6750 family protein traR
IYX66_RS25530 28217..28747 - 531 WP_000987021 conjugal transfer protein TraQ traQ
IYX66_RS25535 28744..29457 - 714 WP_000787002 conjugal transfer protein TraP traP
IYX66_RS25540 29454..30791 - 1338 WP_021516923 conjugal transfer protein TraO traO
IYX66_RS25545 30795..31769 - 975 WP_000547386 DotH/IcmK family type IV secretion protein traN
IYX66_RS25550 31780..32475 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
IYX66_RS25555 32487..32837 - 351 WP_001056367 hypothetical protein traL
IYX66_RS25560 32854..36915 - 4062 WP_000842456 LPD7 domain-containing protein -
IYX66_RS25565 36979..37269 - 291 WP_000817801 IcmT/TraK family protein traK
IYX66_RS25570 37266..38414 - 1149 WP_000775210 plasmid transfer ATPase TraJ virB11
IYX66_RS25575 38398..39234 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
IYX66_RS25580 39231..39689 - 459 WP_001170111 DotD/TraH family lipoprotein -
IYX66_RS25585 39793..40995 - 1203 WP_000979993 conjugal transfer protein TraF -
IYX66_RS25590 41097..41918 - 822 WP_000845373 hypothetical protein traE
IYX66_RS26710 42083..42277 - 195 Protein_45 integrase -
IYX66_RS25595 42391..43752 - 1362 WP_001168171 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
IYX66_RS25600 43770..44396 - 627 WP_000939245 prepilin peptidase -
IYX66_RS25605 44412..44897 - 486 WP_001080767 lytic transglycosylase domain-containing protein virB1
IYX66_RS25610 44942..45478 - 537 WP_000111521 type 4 pilus major pilin -
IYX66_RS25615 45540..46634 - 1095 WP_032253914 type II secretion system F family protein -
IYX66_RS25620 46636..48144 - 1509 WP_000880806 ATPase, T2SS/T4P/T4SS family virB11
IYX66_RS25625 48247..48705 - 459 WP_000095886 type IV pilus biogenesis protein PilP -
IYX66_RS25630 48695..49990 - 1296 WP_000129883 type 4b pilus protein PilO2 -
IYX66_RS25635 50011..51630 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
IYX66_RS25640 51662..52099 - 438 WP_000539952 type IV pilus biogenesis protein PilM -

Host bacterium

ID   2116 GenBank   NZ_JACYGM010000007
Plasmid name   pA2sk2_3 Incompatibility group   IncB/O/K/Z
Plasmid size   77770 bp Coordinate of oriT [Strand]   5124..5215 [-]
Host baterium   Escherichia coli strain CPE3

Cargo genes

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