Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101780
Name   oriT_pA6sk4_5 in_silico
Organism   Escherichia coli strain CPE4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JACYGN010000009 (23043..23134 [-], 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_pA6sk4_5
CGGGGTGTCGGGGCTAAGCCCTGACCAGGTGGTAATCGTATAGCCGTGCGTGCGCGGTTATACGATTACACATCCTGTCCCGTTTTTCAGGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1496 GenBank   WP_052984760
Name   Relaxase_IYY10_RS26275_pA6sk4_5 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   599 GenBank   WP_001291057
Name   WP_001291057_pA6sk4_5 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   1173 GenBank   WP_115759533
Name   trbC_IYY10_RS26280_pA6sk4_5 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: 28715..66063

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IYY10_RS26280 26434..28734 - 2301 WP_115759533 F-type conjugative transfer protein TrbC -
IYY10_RS26285 28715..29839 - 1125 WP_000152382 DsbC family protein trbB
IYY10_RS26290 29836..31134 - 1299 WP_194846364 IncI1-type conjugal transfer protein TrbA trbA
IYY10_RS27040 31691..31786 + 96 WP_001388983 DinQ-like type I toxin DqlB -
IYY10_RS27045 32375..32470 + 96 WP_001363141 DinQ-like type I toxin DqlB -
IYY10_RS26300 32533..32709 - 177 WP_001054907 hypothetical protein -
IYY10_RS26305 32859..33326 - 468 WP_000598962 thermonuclease family protein -
IYY10_RS26310 33484..34107 + 624 WP_001155252 helix-turn-helix domain-containing protein -
IYY10_RS26315 34305..34520 - 216 WP_000266543 hypothetical protein -
IYY10_RS26320 34524..34892 - 369 WP_001345852 hypothetical protein -
IYY10_RS26325 34904..35095 - 192 WP_000751583 hypothetical protein -
IYY10_RS26330 35191..35433 - 243 WP_001363144 hypothetical protein -
IYY10_RS27145 35763..35843 + 81 Protein_48 Hok/Gef family protein -
IYY10_RS26335 35983..36633 - 651 WP_016237948 plasmid IncI1-type surface exclusion protein ExcA -
IYY10_RS26340 36722..38887 - 2166 WP_000691810 DotA/TraY family protein traY
IYY10_RS26345 38962..39531 - 570 WP_000650752 conjugal transfer protein TraX -
IYY10_RS26350 39528..40733 - 1206 WP_001189549 conjugal transfer protein TraW traW
IYY10_RS26355 40691..41311 - 621 WP_021516921 hypothetical protein traV
IYY10_RS26360 41311..44355 - 3045 WP_021516922 hypothetical protein traU
IYY10_RS26365 44650..45468 - 819 WP_000753550 hypothetical protein traT
IYY10_RS27050 45383..45634 - 252 WP_001277573 hypothetical protein -
IYY10_RS26375 45691..46089 - 399 WP_000088813 DUF6750 family protein traR
IYY10_RS26380 46136..46666 - 531 WP_000987021 conjugal transfer protein TraQ traQ
IYY10_RS26385 46663..47376 - 714 WP_000787002 conjugal transfer protein TraP traP
IYY10_RS26390 47373..48710 - 1338 WP_021516923 conjugal transfer protein TraO traO
IYY10_RS26395 48714..49688 - 975 WP_000547386 DotH/IcmK family type IV secretion protein traN
IYY10_RS26400 49699..50394 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
IYY10_RS26405 50406..50756 - 351 WP_001056367 hypothetical protein traL
IYY10_RS26410 50773..54834 - 4062 WP_000842456 LPD7 domain-containing protein -
IYY10_RS26415 54898..55188 - 291 WP_000817801 IcmT/TraK family protein traK
IYY10_RS26420 55185..56333 - 1149 WP_000775210 plasmid transfer ATPase TraJ virB11
IYY10_RS26425 56317..57153 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
IYY10_RS26430 57150..57608 - 459 WP_001170111 DotD/TraH family lipoprotein -
IYY10_RS26435 57712..58914 - 1203 WP_000979993 conjugal transfer protein TraF -
IYY10_RS26440 59016..59837 - 822 WP_000845373 hypothetical protein traE
IYY10_RS26945 60002..60196 - 195 Protein_71 integrase -
IYY10_RS26445 60310..61671 - 1362 WP_001168171 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
IYY10_RS26450 61689..62315 - 627 WP_000939245 prepilin peptidase -
IYY10_RS26455 62331..62816 - 486 WP_001080767 lytic transglycosylase domain-containing protein virB1
IYY10_RS26460 62861..63397 - 537 WP_000111521 type 4 pilus major pilin -
IYY10_RS26465 63459..64553 - 1095 WP_032253914 type II secretion system F family protein -
IYY10_RS26470 64555..66063 - 1509 WP_000880806 ATPase, T2SS/T4P/T4SS family virB11
IYY10_RS26475 66166..66624 - 459 WP_000095886 type IV pilus biogenesis protein PilP -
IYY10_RS26480 66614..67909 - 1296 WP_000129883 type 4b pilus protein PilO2 -
IYY10_RS26485 67930..69549 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
IYY10_RS26490 69581..70018 - 438 WP_000539952 type IV pilus biogenesis protein PilM -

Host bacterium

ID   2224 GenBank   NZ_JACYGN010000009
Plasmid name   pA6sk4_5 Incompatibility group   IncB/O/K/Z
Plasmid size   77770 bp Coordinate of oriT [Strand]   23043..23134 [-]
Host baterium   Escherichia coli strain CPE4

Cargo genes

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