Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   103740
Name   oriT_69-3818|unnamed1 in_silico
Organism   Shigella dysenteriae strain 69-3818
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP026778 (4840..4925 [-], 86 nt)
oriT length   86 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site  
 
 _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_69-3818|unnamed1
CGGGGTGTCGGGGCTAAGCCCTGACCAGGTGGTAATCGTATAGCCGTGCGTGCGCGGTTATACGATTACACATCCTGTCCCGTTTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   2770 GenBank   WP_000991407
Name   Relaxase_C5C01_RS24195_69-3818|unnamed1 insolico UniProt ID   A0A142CND5
Length   906 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 906 a.a.        Molecular weight: 104908.50 Da        Isoelectric Point: 8.2690

>WP_000991407.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPKKRRDGKSSFEDLIAYTSVRDDVPEDELRPDTEVKGEVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCLSLESAAEEMQKAADLAHFSKDDTDPVFHYILSWPAHESPRSEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINCLPWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGIALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVEAPGRYDPEAINVDIRPEKVAETE
SLKQYASRHFAERLPAMARNGELKSCLAVHRTLAEAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVVPGERFRGHSIGSQPVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
GLIQCRSLIEEMIADGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAAADIFERVKPECRYNPELAASDEVEPGFRRDPEIRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNVDRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLNLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM

  Protein domains


Predicted by InterproScan.

(62-315)


  Protein structure


Source ID Structure
AlphaFold DB A0A142CND5


Auxiliary protein


ID   1171 GenBank   WP_001291057
Name   WP_001291057_69-3818|unnamed1 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.

(19-66)


  Protein structure


Source ID Structure
AlphaFold DB A0A142CND4


T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 10505..48391

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C5C01_RS24200 8225..10524 - 2300 Protein_11 F-type conjugative transfer protein TrbC -
C5C01_RS24205 10505..11629 - 1125 WP_000152384 DsbC family protein trbB
C5C01_RS27175 11626..12951 - 1326 WP_171265269 IncI1-type conjugal transfer protein TrbA trbA
C5C01_RS28935 13488..13583 + 96 WP_001363141 DinQ-like type I toxin DqlB -
C5C01_RS28940 14172..14267 + 96 WP_001363141 DinQ-like type I toxin DqlB -
C5C01_RS27750 14330..14506 - 177 WP_001054907 hypothetical protein -
C5C01_RS24225 14657..15124 - 468 WP_000598962 thermonuclease family protein -
C5C01_RS24230 15284..15907 + 624 WP_001155250 helix-turn-helix domain-containing protein -
C5C01_RS24240 16105..16319 - 215 Protein_19 hypothetical protein -
C5C01_RS24245 16323..16691 - 369 WP_001363143 hypothetical protein -
C5C01_RS24255 16991..17233 - 243 WP_001363144 hypothetical protein -
C5C01_RS24260 17563..17715 + 153 WP_001302699 Hok/Gef family protein -
C5C01_RS24275 18341..18988 - 648 WP_015056434 plasmid IncI1-type surface exclusion protein ExcA -
C5C01_RS24280 19075..21233 - 2159 Protein_24 DotA/TraY family protein -
C5C01_RS24285 21124..21771 - 648 WP_237161441 conjugal transfer protein TraX -
C5C01_RS24290 21872..23077 - 1206 WP_001189548 conjugal transfer protein TraW traW
C5C01_RS24300 23653..26694 - 3042 Protein_27 ATP-binding protein -
C5C01_RS24310 26988..27614 - 627 WP_000785703 hypothetical protein traT
C5C01_RS28945 27721..27972 - 252 WP_001277573 hypothetical protein -
C5C01_RS24320 28029..28427 - 399 WP_000088813 DUF6750 family protein traR
C5C01_RS24325 28474..29004 - 531 WP_000987021 conjugal transfer protein TraQ traQ
C5C01_RS24330 29001..29483 - 483 WP_237161442 conjugal transfer protein TraP traP
C5C01_RS28635 29480..29713 - 234 WP_237161443 hypothetical protein traP
C5C01_RS24335 29710..31043 - 1334 Protein_34 conjugal transfer protein TraO -
C5C01_RS24340 31047..32021 - 975 WP_000547385 DotH/IcmK family type IV secretion protein traN
C5C01_RS24345 32032..32727 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
C5C01_RS24350 32739..33089 - 351 WP_001056367 hypothetical protein traL
C5C01_RS24355 33106..37167 - 4062 WP_000842453 LPD7 domain-containing protein -
C5C01_RS24360 37231..37521 - 291 WP_000817801 IcmT/TraK family protein traK
C5C01_RS24365 37518..38664 - 1147 Protein_40 plasmid transfer ATPase TraJ -
C5C01_RS24370 38648..39483 - 836 Protein_41 type IV secretory system conjugative DNA transfer family protein -
C5C01_RS24375 39480..39938 - 459 WP_001170111 DotD/TraH family lipoprotein -
C5C01_RS24380 40042..41244 - 1203 WP_000979993 conjugal transfer protein TraF -
C5C01_RS24385 41346..42167 - 822 WP_000845373 hypothetical protein traE
C5C01_RS28640 42332..42526 - 195 Protein_45 integrase -
C5C01_RS24395 42640..44000 - 1361 Protein_46 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
C5C01_RS24400 44018..44518 - 501 WP_001330556 prepilin peptidase -
C5C01_RS24405 44659..45144 - 486 WP_001080767 lytic transglycosylase domain-containing protein virB1
C5C01_RS24410 45189..45725 - 537 WP_000111534 type 4 pilus major pilin -
C5C01_RS24415 45787..46881 - 1095 WP_000697158 type II secretion system F family protein -
C5C01_RS24420 46883..48391 - 1509 WP_032425678 ATPase, T2SS/T4P/T4SS family virB11
C5C01_RS24425 48495..48953 - 459 WP_000095885 type IV pilus biogenesis protein PilP -
C5C01_RS24430 48943..50238 - 1296 WP_000129883 type 4b pilus protein PilO2 -
C5C01_RS24435 50259..51878 - 1620 WP_001035565 PilN family type IVB pilus formation outer membrane protein -
C5C01_RS24440 51910..52347 - 438 WP_000539952 type IV pilus biogenesis protein PilM -


Host bacterium


ID   4180 GenBank   NZ_CP026778
Plasmid name   69-3818|unnamed1 Incompatibility group   IncB/O/K/Z
Plasmid size   115128 bp Coordinate of oriT [Strand]   4840..4925 [-]
Host baterium   Shigella dysenteriae strain 69-3818

Cargo genes


Drug resistance gene   tet(B), catA1, ant(3'')-Ia, qacE, sul1
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -