Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LU604_RS24220 Genome accession   NZ_CP089942
Coordinates   4577504..4578040 (-) Length   178 a.a.
NCBI ID   WP_020322984.1    Uniprot ID   -
Organism   Erwinia tracheiphila strain MDCuke     
Function   ssDNA binding (predicted from homology)   
DNA processing

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 4573318..4614086 4577504..4578040 within 0


Gene organization within MGE regions


Location: 4573318..4614086
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LU604_RS24195 (LU604_24195) - 4573318..4573965 (-) 648 Protein_4790 IS6 family transposase -
  LU604_RS24205 (LU604_24205) - 4574397..4575437 (+) 1041 WP_233479095.1 IS481 family transposase -
  LU604_RS27120 - 4575724..4576449 (-) 726 WP_325175786.1 reverse transcriptase domain-containing protein -
  LU604_RS27125 - 4576367..4576951 (-) 585 WP_020322983.1 reverse transcriptase domain-containing protein -
  LU604_RS24220 (LU604_24220) ssb 4577504..4578040 (-) 537 WP_020322984.1 single-stranded DNA-binding protein SSB1 Machinery gene
  LU604_RS24225 (LU604_24225) uvrA 4578343..4581168 (+) 2826 WP_233479454.1 excinuclease ABC subunit UvrA -
  LU604_RS24230 (LU604_24230) - 4581531..4582583 (+) 1053 WP_233479455.1 NAD(P)-dependent alcohol dehydrogenase -
  LU604_RS24235 (LU604_24235) - 4582861..4583161 (-) 301 Protein_4797 MmcQ/YjbR family DNA-binding protein -
  LU604_RS24240 (LU604_24240) - 4583199..4583611 (-) 413 Protein_4798 secondary thiamine-phosphate synthase enzyme YjbQ -
  LU604_RS24245 (LU604_24245) - 4583912..4585105 (-) 1194 WP_020322990.1 amino acid aminotransferase -
  LU604_RS24250 (LU604_24250) - 4585164..4585766 (-) 603 Protein_4800 YitT family protein -
  LU604_RS24255 (LU604_24255) tnpA 4586078..4586488 (-) 411 Protein_4801 IS200/IS605 family transposase -
  LU604_RS24260 (LU604_24260) - 4586658..4587063 (-) 406 Protein_4802 Lrp/AsnC family transcriptional regulator -
  LU604_RS24265 (LU604_24265) - 4587246..4587413 (-) 168 WP_233479456.1 hypothetical protein -
  LU604_RS24270 (LU604_24270) - 4587535..4589454 (-) 1920 WP_233479457.1 S8 family serine peptidase -
  LU604_RS24275 (LU604_24275) - 4589606..4590106 (-) 501 WP_233479458.1 hypothetical protein -
  LU604_RS24280 (LU604_24280) - 4590384..4591082 (-) 699 Protein_4806 IS1 family transposase -
  LU604_RS24285 (LU604_24285) dnaB 4591175..4592590 (-) 1416 WP_020322994.1 replicative DNA helicase -
  LU604_RS24290 (LU604_24290) - 4592692..4593672 (+) 981 WP_020322995.1 quinone oxidoreductase -
  LU604_RS24295 (LU604_24295) pspG 4593916..4594125 (-) 210 WP_233479459.1 envelope stress response protein PspG -
  LU604_RS24300 (LU604_24300) - 4594847..4595544 (-) 698 Protein_4810 IS1 family transposase -
  LU604_RS24305 (LU604_24305) dusA 4596204..4597253 (-) 1050 WP_233479460.1 tRNA dihydrouridine(20/20a) synthase DusA -
  LU604_RS24310 (LU604_24310) - 4597345..4597734 (+) 390 Protein_4812 integrase -
  LU604_RS24315 (LU604_24315) - 4597723..4598262 (-) 540 Protein_4813 phage tail protein -
  LU604_RS24320 (LU604_24320) - 4598436..4599476 (+) 1041 WP_233478989.1 IS481 family transposase -
  LU604_RS24325 (LU604_24325) - 4599665..4599862 (-) 198 WP_016191137.1 hypothetical protein -
  LU604_RS24330 (LU604_24330) - 4599938..4600591 (-) 654 WP_233479461.1 DUF2612 domain-containing protein -
  LU604_RS24335 (LU604_24335) - 4600588..4601778 (-) 1191 WP_233479462.1 baseplate J/gp47 family protein -
  LU604_RS24340 (LU604_24340) - 4601781..4602128 (-) 348 WP_233479463.1 hypothetical protein -
  LU604_RS24345 (LU604_24345) - 4602125..4602880 (-) 756 WP_233479464.1 phage baseplate assembly protein V -
  LU604_RS24350 (LU604_24350) - 4602880..4603860 (-) 981 WP_233479465.1 phage protein -
  LU604_RS24355 (LU604_24355) - 4603896..4604195 (-) 300 WP_233479466.1 phage baseplate plug protein -
  LU604_RS24360 (LU604_24360) - 4604185..4604574 (-) 390 Protein_4822 phage baseplate protein -
  LU604_RS24365 (LU604_24365) - 4604618..4604791 (-) 174 WP_157275260.1 hypothetical protein -
  LU604_RS24370 (LU604_24370) yihA 4605242..4605901 (+) 660 WP_016192279.1 ribosome biogenesis GTP-binding protein YihA/YsxC -
  LU604_RS24375 (LU604_24375) - 4605980..4607020 (+) 1041 Protein_4825 helix-turn-helix domain-containing protein -
  LU604_RS24380 (LU604_24380) - 4607374..4607838 (+) 465 WP_233479467.1 STM2901 family protein -
  LU604_RS24385 (LU604_24385) - 4607832..4608155 (+) 324 WP_233479468.1 DUF1493 family protein -
  LU604_RS27130 - 4608263..4608397 (-) 135 WP_256371734.1 hypothetical protein -
  LU604_RS24395 (LU604_24395) - 4609593..4610028 (-) 436 Protein_4830 transposase -
  LU604_RS24400 (LU604_24400) - 4610093..4610798 (+) 706 Protein_4831 IS6 family transposase -
  LU604_RS24405 (LU604_24405) - 4610857..4611190 (-) 334 Protein_4832 helix-turn-helix domain-containing protein -
  LU604_RS24410 (LU604_24410) polA 4611303..4614086 (-) 2784 WP_233479470.1 DNA polymerase I -

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 19080.03 Da        Isoelectric Point: 5.2456

>NTDB_id=639300 LU604_RS24220 WP_020322984.1 4577504..4578040(-) (ssb) [Erwinia tracheiphila strain MDCuke]
MASRGINKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGETKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWTDQAGVEKYTTEVVVNVGGTMQMLGGRQGGGAQAGGNNQGNNNGWGQPQQPQGGNQFSGGGQASRPQSQQN
SAPISNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=639300 LU604_RS24220 WP_020322984.1 4577504..4578040(-) (ssb) [Erwinia tracheiphila strain MDCuke]
ATGGCCAGCAGAGGCATAAATAAAGTGATCCTGGTAGGCAACCTGGGTCAGGATCCTGAAGTCCGTTACATGCCGAATGG
CGGTGCTGTTGCCAATATCACTCTGGCTACCTCTGAAAGCTGGCGTGACAAACAGACTGGTGAAACTAAAGAGAAAACAG
AATGGCATCGCGTGGTGCTGTTTGGAAAGCTTGCTGAAGTGGCGGGCGAATATCTGCGCAAAGGTTCTCAGGTTTATATT
GAGGGTGCGCTTCAGACGCGTAAATGGACCGATCAGGCAGGCGTTGAGAAATACACCACAGAAGTGGTTGTTAACGTTGG
TGGCACCATGCAGATGCTGGGTGGCCGCCAGGGCGGCGGTGCGCAGGCTGGTGGTAATAACCAGGGTAATAATAACGGCT
GGGGTCAGCCTCAGCAGCCGCAGGGCGGCAACCAGTTCAGCGGCGGCGGTCAGGCGTCACGGCCACAGTCACAGCAAAAC
AGCGCACCCATCAGCAATGAACCGCCGATGGATTTTGACGACGATATCCCGTTTTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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
  ssb Vibrio cholerae strain A1552

71.978

100

0.736
  ssb Glaesserella parasuis strain SC1401

55.738

100

0.573
  ssb Neisseria meningitidis MC58

43.716

100

0.449
  ssb Neisseria gonorrhoeae MS11

43.094

100

0.438
  ssbA Bacillus subtilis subsp. subtilis str. 168

38.764

100

0.388