Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HUW87_RS05070 Genome accession   NZ_CP058237
Coordinates   1069468..1069959 (+) Length   163 a.a.
NCBI ID   WP_242874530.1    Uniprot ID   -
Organism   Weissella cibaria strain JW15     
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 1060537..1087699 1069468..1069959 within 0


Gene organization within MGE regions


Location: 1060537..1087699
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HUW87_RS04990 (HUW87_04950) - 1060537..1061604 (-) 1068 WP_242874523.1 site-specific integrase -
  HUW87_RS04995 (HUW87_04955) - 1061945..1062976 (-) 1032 WP_242874524.1 DUF3644 domain-containing protein -
  HUW87_RS05000 (HUW87_04960) - 1063015..1063440 (-) 426 WP_238921702.1 SHOCT domain-containing protein -
  HUW87_RS05005 (HUW87_04965) - 1063548..1063919 (-) 372 WP_242874525.1 hypothetical protein -
  HUW87_RS05010 (HUW87_04970) - 1064026..1064835 (-) 810 WP_106444945.1 CD20-like domain-containing protein -
  HUW87_RS05015 (HUW87_04975) - 1064911..1065309 (-) 399 WP_199414026.1 hypothetical protein -
  HUW87_RS05020 (HUW87_04980) - 1065313..1065660 (-) 348 WP_242874526.1 helix-turn-helix transcriptional regulator -
  HUW87_RS05025 (HUW87_04985) - 1065924..1066151 (+) 228 WP_242874527.1 helix-turn-helix transcriptional regulator -
  HUW87_RS05030 (HUW87_04990) - 1066171..1066881 (+) 711 WP_242874528.1 ORF6C domain-containing protein -
  HUW87_RS05035 (HUW87_04995) - 1066884..1067171 (+) 288 WP_106443622.1 hypothetical protein -
  HUW87_RS05040 (HUW87_05000) - 1067168..1067365 (+) 198 WP_106443623.1 hypothetical protein -
  HUW87_RS05045 (HUW87_05005) - 1067362..1067550 (+) 189 WP_106443624.1 hypothetical protein -
  HUW87_RS05050 (HUW87_05015) - 1067831..1067974 (+) 144 WP_195331974.1 hypothetical protein -
  HUW87_RS05055 (HUW87_05020) - 1067967..1068149 (+) 183 WP_106443626.1 hypothetical protein -
  HUW87_RS05060 (HUW87_05025) - 1068151..1068792 (+) 642 WP_106443627.1 ERF family protein -
  HUW87_RS05065 (HUW87_05030) - 1068792..1069502 (+) 711 WP_242874529.1 putative HNHc nuclease -
  HUW87_RS05070 (HUW87_05035) ssb 1069468..1069959 (+) 492 WP_242874530.1 single-stranded DNA-binding protein Machinery gene
  HUW87_RS05075 (HUW87_05040) - 1069970..1070299 (+) 330 WP_242874531.1 helix-turn-helix domain-containing protein -
  HUW87_RS05080 (HUW87_05045) - 1070441..1070968 (+) 528 WP_160982860.1 hypothetical protein -
  HUW87_RS05085 (HUW87_05050) - 1070983..1071495 (+) 513 WP_242874532.1 hypothetical protein -
  HUW87_RS05090 (HUW87_05055) - 1071544..1072239 (+) 696 WP_242874533.1 hypothetical protein -
  HUW87_RS05095 (HUW87_05060) - 1072453..1073274 (-) 822 WP_267490115.1 IS3 family transposase -
  HUW87_RS05100 (HUW87_05065) - 1073295..1073555 (-) 261 WP_003610944.1 transposase -
  HUW87_RS05105 (HUW87_05070) - 1073682..1073870 (+) 189 WP_242874534.1 hypothetical protein -
  HUW87_RS05110 (HUW87_05075) - 1073885..1077982 (+) 4098 WP_242874535.1 phage tail tape measure protein -
  HUW87_RS05115 (HUW87_05080) - 1077990..1078376 (+) 387 WP_195556277.1 hypothetical protein -
  HUW87_RS05120 (HUW87_05085) - 1078432..1080939 (+) 2508 WP_242874536.1 distal tail protein Dit -
  HUW87_RS05125 (HUW87_05090) - 1080954..1083284 (+) 2331 WP_242874537.1 phage tail spike protein -
  HUW87_RS05130 (HUW87_05095) - 1083296..1083469 (+) 174 WP_242874538.1 hypothetical protein -
  HUW87_RS05135 (HUW87_05100) - 1083473..1083718 (+) 246 WP_242874539.1 hypothetical protein -
  HUW87_RS05140 (HUW87_05105) - 1083731..1083961 (+) 231 WP_060654748.1 hypothetical protein -
  HUW87_RS05145 (HUW87_05110) - 1083948..1084268 (+) 321 WP_242874540.1 phage holin, LLH family -
  HUW87_RS05150 (HUW87_05115) - 1084270..1085286 (+) 1017 WP_242874541.1 GH25 family lysozyme -
  HUW87_RS05155 (HUW87_05120) - 1085676..1086632 (+) 957 WP_063082924.1 TerC family protein -
  HUW87_RS05160 (HUW87_05125) - 1086762..1087565 (+) 804 WP_242874542.1 prohibitin family protein -

Sequence

Protein


Download         Length: 163 a.a.        Molecular weight: 18014.83 Da        Isoelectric Point: 5.2456

>NTDB_id=462878 HUW87_RS05070 WP_242874530.1 1069468..1069959(+) (ssb) [Weissella cibaria strain JW15]
MNHVSLIGRLTKEPEIKYTTSGAAVASGTIAVNRDFTNANGERESDFINFVIWRKAAENFVNMTAKGSLVGLEGSWQTRS
YENQQGQRVYVSELVVSNFTLVETKEQTEQRKGQSAQQGNGGFKSTPSQNNFNGQQAPQQGSFSPNDMYGKDLPPLKDDD
LPF

Nucleotide


Download         Length: 492 bp        

>NTDB_id=462878 HUW87_RS05070 WP_242874530.1 1069468..1069959(+) (ssb) [Weissella cibaria strain JW15]
ATGAATCACGTCTCGCTAATCGGTCGGCTCACTAAGGAGCCAGAAATAAAGTACACCACGTCAGGTGCAGCAGTTGCATC
AGGAACAATCGCAGTTAACCGAGATTTTACGAACGCTAATGGGGAGCGCGAGAGTGACTTTATCAACTTTGTTATTTGGC
GCAAGGCTGCCGAAAACTTTGTCAATATGACCGCTAAGGGGTCGCTGGTTGGCTTGGAAGGTTCGTGGCAAACACGAAGC
TATGAGAACCAACAAGGACAGCGTGTATACGTTTCTGAACTAGTAGTAAGTAACTTTACTTTAGTTGAAACAAAAGAGCA
GACAGAGCAACGCAAGGGGCAATCAGCACAACAAGGTAATGGTGGGTTCAAGAGTACACCATCACAAAACAACTTCAATG
GTCAGCAAGCACCACAGCAAGGGAGCTTCTCGCCTAATGATATGTACGGTAAAGACTTGCCGCCGTTGAAAGATGATGAT
CTTCCATTTTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(1-100)


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 Latilactobacillus sakei subsp. sakei 23K

53.216

100

0.558
  ssbA Bacillus subtilis subsp. subtilis str. 168

46.821

100

0.497
  ssb Vibrio cholerae strain A1552

34.463

100

0.374