Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101556
Name   oriT_FDAARGOS_950|unnamed in_silico
Organism   Hafnia alvei strain FDAARGOS_950
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAEDZV010000012 (21201..21286 [-], 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_FDAARGOS_950|unnamed
TAAGGGACAAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGCCCCTACAAAACGTCTTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1379 GenBank   WP_103008360
Name   traI_I6H07_RS22585_FDAARGOS_950|unnamed insolico UniProt ID   _
Length   664 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 664 a.a.        Molecular weight: 76808.31 Da        Isoelectric Point: 6.6708

>WP_103008360.1 TraI/MobA(P) family conjugative relaxase [Hafnia alvei]
MIGRIPPKRRDGKSSFLKLVSYVVIRDEDKPDMPLEPEHPDWRRPKSKDDLFNRLVDYVSRSGDEGAMHT
LNIDDDGRQRVLFDGVLCETNNFSLATAAVEMNAVASQNTRCKDPVFHYILSWPTSDNPNQDEVFDSVRH
TLKSFGMDEHQYVAAIHTDTNNIHCHIAVNRVHPVTYDTADDSFTRLKLQRACRELELKYDWTPTNGCYV
VDENKQIVYKKRDEPPVPQGSVAMEYYADQESLHSYAMRTCSDDLEKLIVKDELTWFELHKLLVKQGLRL
DKKGKGLAIYSLDEKDITPIKASHLHPDLTLNCLEDDLGPFVRMEDVGRYTLDEGDTSEDALIHMYRYEP
HLHKRDEGARASRREARAVARRELFDRYKKYSNGYKRPKMEGTEATTQFKALSNRYAWKKEQVRFVFDDP
LIRKAVYRVLEAERQKEFESLKAQIKQERNAFYSHPANRKLTKQEWVGQQALKQDQAAISCLRGWSYRYK
RNALTPTLSDNAIVCAVADDIKPYNVQSYETSVNRDGTIQYKQDGIVQIQDKGNSIEIADPYIQNGQHIA
GAMVIAEEKSGEKLLFSGETEFINRACSLVPWFNSDGEKPLTLTDPQQRVMAGYDKPEVRDDKFVATHRI
VDEETYLASLERNEVNDNRERHDLKSKKNSYRPR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-319)


  Protein structure



No available structure.




T4CP

ID   1012 GenBank   WP_103008353
Name   trbC_I6H07_RS22545_FDAARGOS_950|unnamed 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: 83005.71 Da        Isoelectric Point: 7.7658

>WP_103008353.1 F-type conjugative transfer protein TrbC [Hafnia alvei]
MPNDNTQPVDKVRVRQTTQSTWIDDYLLAPVTVQAGLVVILILTFLRTWVLIPGVFATAIWLLTFFGQLF
RMPLRMPKDIGGLDMSTERENAYEFKGPMGLFRFTRRRLSWDKSAGIMCLGHARRRFLGRELWLTLEDCL
RHLQLLATTGSGKTEALLSIQLNSICMGRGMTFSDGKAETRLAYAIWSLMRRYGQEDNYYVLNFLNGGRD
RFDELLGNDRTRPQSNSINFFGDATATFIIQLMESLLPQVGASEAGWQDKAKPMLYGLVYALYYKCKKES
IRLSQSMIQKHLPLKKMVELYIEGKQNGWHDEALNALESYLNNLAGFRMELVSKPSEWDQGVYDQHGFLI
QQFSRMLAMFNDVYGHIFATDAGDIDIRDVLHNDRTLVVLIPALELSKSESANLGKLYISAKRMVISRDL
GYQLEGKRKDVLIAKKFANPFPYPDIHDELGSYFAPGMDDLAAQMRSLGMMLVISAQDIQRFIAQFKGEY
QTVNANMLVKWFMALQDEKDTFELAKATAGKDYYAELGEMKRTPGTVSSSYEEANTTYIREKNRISLDEL
KELNPGEGFISFKSALVPSSAIYIPDDEKLSSKLELRINRFIDIGSPTEADLIAQNPHLSRLLPPSEMEV
SMVLQRTDEIVAGSETHTIPPLMDPILARLMKVAMDLDNRCDISYSPTQRGILLFEAARDVLNKRGKKWF
TVKTQPNPLKVSDAMARRLAKQSTAFMSQGH

  Protein domains


Predicted by InterproScan.

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

(448-564)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 923..12360

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6H07_RS22495 (I6H07_22515) 491..886 + 396 WP_103008346 hypothetical protein -
I6H07_RS22500 (I6H07_22520) 923..1531 + 609 WP_103008347 hypothetical protein traT
I6H07_RS22505 (I6H07_22525) 1528..4590 + 3063 WP_103008348 conjugal transfer protein traU
I6H07_RS22510 (I6H07_22530) 4608..5828 + 1221 WP_103008349 conjugal transfer protein TraW traW
I6H07_RS22515 (I6H07_22535) 5825..6343 + 519 WP_046449685 conjugal transfer protein TraX -
I6H07_RS22520 (I6H07_22540) 6394..8526 + 2133 WP_103008350 DotA/TraY family protein traY
I6H07_RS22525 (I6H07_22545) 8537..9097 + 561 WP_127908307 hypothetical protein -
I6H07_RS23590 9690..9785 + 96 WP_021542841 DinQ-like type I toxin DqlB -
I6H07_RS22535 (I6H07_22555) 9929..11224 + 1296 WP_232353167 conjugal transfer protein TrbA trbA
I6H07_RS22540 (I6H07_22560) 11371..12360 + 990 WP_103008352 thioredoxin fold domain-containing protein trbB
I6H07_RS22545 (I6H07_22565) 12347..14542 + 2196 WP_103008353 F-type conjugative transfer protein TrbC -
I6H07_RS22550 (I6H07_22570) 14682..15185 + 504 WP_103008373 phospholipase D family protein -
I6H07_RS22555 (I6H07_22575) 15250..15747 + 498 WP_103008354 hypothetical protein -
I6H07_RS22560 (I6H07_22580) 15892..16467 + 576 WP_103008355 DUF2913 family protein -
I6H07_RS22565 (I6H07_22585) 16583..16774 + 192 WP_103008356 hypothetical protein -
I6H07_RS22570 (I6H07_22590) 16786..17052 + 267 WP_103008357 PerC family transcriptional regulator -

Region 2: 139340..144490

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6H07_RS23170 (I6H07_23190) 135135..135671 + 537 WP_103008333 transcription termination factor NusG -
I6H07_RS23175 (I6H07_23195) 135880..136536 + 657 WP_232353166 hypothetical protein -
I6H07_RS23180 (I6H07_23200) 136599..136802 + 204 WP_103008334 TraR/DksA C4-type zinc finger protein -
I6H07_RS23185 (I6H07_23205) 136816..137010 + 195 WP_046449659 hypothetical protein -
I6H07_RS23190 (I6H07_23210) 137537..137950 + 414 WP_127908306 hypothetical protein -
I6H07_RS23195 (I6H07_23215) 138001..138987 + 987 WP_186277457 TcpQ domain-containing protein -
I6H07_RS23200 (I6H07_23220) 138987..139343 + 357 WP_103008338 type IV pilus biogenesis protein PilM -
I6H07_RS23205 (I6H07_23225) 139340..139804 + 465 WP_064575603 hypothetical protein traL
I6H07_RS23210 (I6H07_23230) 139868..140545 + 678 WP_103008339 DotI/IcmL/TraM family protein traM
I6H07_RS23215 (I6H07_23235) 140542..141579 + 1038 WP_103008340 DotH/IcmK family type IV secretion protein traN
I6H07_RS23220 (I6H07_23240) 141579..142781 + 1203 WP_103008341 conjugal transfer protein TraO traO
I6H07_RS23225 (I6H07_23245) 142778..143536 + 759 WP_103008342 hypothetical protein traP
I6H07_RS23230 (I6H07_23250) 143546..144076 + 531 WP_103008343 conjugal transfer protein TraQ traQ
I6H07_RS23235 (I6H07_23255) 144092..144490 + 399 WP_046449680 DUF6750 family protein traR
I6H07_RS23240 (I6H07_23260) 144523..145098 - 576 WP_103008344 hypothetical protein -

Host bacterium

ID   2000 GenBank   NZ_JAEDZV010000012
Plasmid name   FDAARGOS_950|unnamed Incompatibility group   -
Plasmid size   145098 bp Coordinate of oriT [Strand]   21201..21286 [-]
Host baterium   Hafnia alvei strain FDAARGOS_950

Cargo genes

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