Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   AL537_RS11050 Genome accession   NZ_CP014036
Coordinates   2279625..2281046 (-) Length   473 a.a.
NCBI ID   WP_104971566.1    Uniprot ID   -
Organism   Vibrio diabolicus strain FDAARGOS_105     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 2279195..2318445 2279625..2281046 within 0


Gene organization within MGE regions


Location: 2279195..2318445
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AL537_RS11045 (AL537_11045) - 2279195..2279569 (-) 375 WP_005397786.1 CidA/LrgA family protein -
  AL537_RS11050 (AL537_11050) sbcB 2279625..2281046 (-) 1422 WP_104971566.1 exodeoxyribonuclease I Machinery gene
  AL537_RS11055 (AL537_11055) - 2281227..2282423 (+) 1197 WP_104971567.1 site-specific integrase -
  AL537_RS11060 (AL537_11060) - 2282568..2283614 (+) 1047 WP_104971568.1 hypothetical protein -
  AL537_RS11065 (AL537_11065) - 2283857..2284972 (+) 1116 WP_104971569.1 dsDNA nuclease domain-containing protein -
  AL537_RS11070 (AL537_11070) - 2284969..2286723 (+) 1755 WP_104971570.1 hypothetical protein -
  AL537_RS11075 (AL537_11075) - 2286740..2287042 (-) 303 WP_104971571.1 hypothetical protein -
  AL537_RS11080 (AL537_11080) - 2287198..2287854 (-) 657 WP_104971572.1 hypothetical protein -
  AL537_RS11085 (AL537_11085) - 2287941..2288213 (-) 273 WP_025766807.1 hypothetical protein -
  AL537_RS11090 (AL537_11090) - 2288439..2289140 (-) 702 WP_029823468.1 S24 family peptidase -
  AL537_RS11095 (AL537_11095) - 2289251..2289445 (+) 195 WP_029823469.1 YdaS family helix-turn-helix protein -
  AL537_RS11100 (AL537_11100) - 2289514..2290062 (+) 549 WP_104971573.1 toxin YdaT family protein -
  AL537_RS26320 - 2290122..2290253 (+) 132 WP_255201246.1 hypothetical protein -
  AL537_RS26140 - 2290250..2291035 (+) 786 WP_244190823.1 hypothetical protein -
  AL537_RS11115 (AL537_11115) - 2291032..2291763 (+) 732 WP_064368129.1 ATP-binding protein -
  AL537_RS11120 (AL537_11120) - 2291764..2292345 (+) 582 WP_104971574.1 hypothetical protein -
  AL537_RS11125 (AL537_11125) - 2292571..2292879 (+) 309 WP_146107568.1 hypothetical protein -
  AL537_RS11130 (AL537_11130) - 2292942..2293544 (+) 603 WP_146107569.1 hypothetical protein -
  AL537_RS11135 (AL537_11135) - 2293919..2294695 (+) 777 WP_104971577.1 hypothetical protein -
  AL537_RS11140 (AL537_11140) - 2294926..2296218 (+) 1293 WP_104971578.1 SGNH/GDSL hydrolase family protein -
  AL537_RS11145 (AL537_11145) - 2296566..2296847 (+) 282 WP_069522859.1 hypothetical protein -
  AL537_RS11150 (AL537_11150) - 2296813..2297271 (+) 459 WP_069522858.1 hypothetical protein -
  AL537_RS11155 (AL537_11155) - 2297312..2297497 (+) 186 WP_104971579.1 hypothetical protein -
  AL537_RS11160 (AL537_11160) - 2298069..2299025 (+) 957 WP_244190824.1 tyrosine-type recombinase/integrase -
  AL537_RS11165 (AL537_11165) - 2299474..2300043 (+) 570 WP_054729838.1 terminase small subunit -
  AL537_RS11170 (AL537_11170) - 2300054..2301988 (+) 1935 WP_079880085.1 terminase gpA endonuclease subunit -
  AL537_RS11175 (AL537_11175) - 2301982..2302509 (+) 528 WP_053807288.1 hypothetical protein -
  AL537_RS11180 (AL537_11180) - 2302509..2304068 (+) 1560 WP_104971580.1 phage portal protein -
  AL537_RS11185 (AL537_11185) - 2304034..2306007 (+) 1974 WP_069522853.1 phage major capsid protein -
  AL537_RS11190 (AL537_11190) - 2306067..2306258 (+) 192 WP_069522852.1 hypothetical protein -
  AL537_RS11195 (AL537_11195) - 2306251..2306529 (+) 279 WP_069522851.1 sugar transporter -
  AL537_RS11200 (AL537_11200) - 2306526..2307158 (+) 633 WP_069522850.1 phage tail protein -
  AL537_RS11205 (AL537_11205) gpU 2307148..2307594 (+) 447 WP_069522849.1 phage tail terminator protein -
  AL537_RS11210 (AL537_11210) - 2307597..2308094 (+) 498 WP_069522848.1 phage tail tube protein -
  AL537_RS11215 (AL537_11215) - 2308097..2308579 (+) 483 WP_104971581.1 phage minor tail protein G -
  AL537_RS11220 (AL537_11220) - 2308603..2308935 (+) 333 WP_005376966.1 phage tail assembly protein T -
  AL537_RS11225 (AL537_11225) - 2308916..2311147 (+) 2232 WP_104971582.1 hypothetical protein -
  AL537_RS11230 (AL537_11230) - 2311154..2311633 (+) 480 WP_069522845.1 hypothetical protein -
  AL537_RS11235 (AL537_11235) - 2311620..2313881 (+) 2262 WP_104971583.1 sialate O-acetylesterase -
  AL537_RS11240 (AL537_11240) - 2313885..2314706 (+) 822 WP_104971584.1 hypothetical protein -
  AL537_RS11245 (AL537_11245) - 2314711..2315247 (+) 537 WP_104971585.1 DUF1833 family protein -
  AL537_RS11250 (AL537_11250) - 2315247..2315672 (+) 426 WP_104971586.1 phage tail protein -
  AL537_RS11255 (AL537_11255) - 2315632..2318445 (+) 2814 WP_104971587.1 host specificity factor TipJ family phage tail protein -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54352.54 Da        Isoelectric Point: 4.8198

>NTDB_id=167756 AL537_RS11050 WP_104971566.1 2279625..2281046(-) (sbcB) [Vibrio diabolicus strain FDAARGOS_105]
MNNTEQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQPPADYLPSPEAALITGITPQKTVQEGLSEP
EFIAKIHAELAKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRQKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELHERLYTKREDLGELLPVPVKLVHLNKCPILAPAKTLTAENAES
IGIDRQQCLANLALLRQHPEIREKLISLFSVERKFDKSDDADTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=167756 AL537_RS11050 WP_104971566.1 2279625..2281046(-) (sbcB) [Vibrio diabolicus strain FDAARGOS_105]
ATGAATAATACCGAACAGCCTACATTCTTCTTTTTTGATTATGAGACATGGGGAACCAACCCCGCGAAAGATCGCCCAAG
CCAGTTTGCTGGTGTTCGTACAGATGAAAACTTTAATATCATCGGCGAGCCTTTAGTCATGTACTGTCAACCACCGGCTG
ATTATCTTCCGTCTCCTGAAGCTGCACTTATTACTGGTATTACTCCGCAAAAAACGGTTCAAGAAGGCCTTTCTGAGCCT
GAGTTTATCGCTAAGATTCACGCTGAACTCGCGAAACCAAATACCACCAGTTTAGGCTACAACAGCATTCGCTTTGATGA
CGAAGTGACACGTTATACTTGTTATCGCAACTTTATCGATCCATACGCATGGAGTTGGCAAAACGGTAACTCGCGTTGGG
ATTTACTCGATGTATTACGCGCGTGCCATGCCCTTCGCCCAGAAGGCGTAGAGTGGCCAGAAAACGAAGATGGCTTCACT
AGTTTTAAATTAGAGCACTTGTCTGTTGCTAACGGCATAGAACATAGTAACGCGCACGATGCGATGGCAGACGTGATTGC
GACTATCGAAATGGCGAAAAAAGTCAAAGCAGCGCAACCAAAATTGTTTGACTACTTCTTTTCTATGCGCCAAAAGCGCA
AGCTCAATGAATTAGTCGACATCGTCAACATGACGCCGTTGATGCACGTTTCAGGCATGCTAGGGCGCGAATGCCAGTAC
ACTAGCTGGATTGTGCCTGTTGCTTGGCACCCAACCAATAATAACGCCGTTATCACTATCGATTTAGCGAAAGACCCTCA
GCCTATTCTAGAGCTATCCGCAGAAGAGCTACACGAAAGACTCTACACTAAGCGAGAAGATCTTGGTGAATTGCTACCAG
TGCCTGTTAAGTTAGTTCATTTAAACAAATGCCCTATTCTCGCCCCTGCAAAAACGTTAACGGCTGAAAATGCGGAGTCT
ATTGGCATTGATCGCCAGCAATGTCTCGCTAATCTCGCTTTGTTGCGCCAACATCCTGAAATTAGAGAAAAGCTGATTAG
CCTCTTTTCAGTCGAGCGTAAATTCGATAAAAGTGATGACGCCGATACGCAACTTTACGACGGATTCTTCTCTCCGGCCG
ATCGCGCAGCCATGGATATCATTCGAGAAACCGACCCGAACAATCTTGCCGCATTGGACATTGAATTTGATGACAAGCGC
ATTAAACCTCTATTGTTCCGCTATCGTGCGCGTAACTTCCCAGGCACATTAGACGAGCAAGAACAGAGACGCTGGGCATT
ACACTGTCGAGAAGTGTTTGAAAGCCAAATTGAAGAGTACATGCTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATTGCGATATTAAAATCCGTGTACCGTTATGTAGAGAGCTTAGCTTCTTAA

Domains

Predicted by InterproScan.

Exonuclease (RNase_T)

(11-190)

Exonuclease C-terminal (Exonuc_X-T_C)

(210-469)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  sbcB Vibrio cholerae O1 biovar El Tor strain E7946

79.493

100

0.795

Multiple sequence alignment