Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LHK_RS06860 Genome accession   NC_012559
Coordinates   1454673..1455161 (-) Length   162 a.a.
NCBI ID   WP_012696971.1    Uniprot ID   C1D7P5
Organism   Laribacter hongkongensis HLHK9     
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 1454673..1468093 1454673..1455161 within 0


Gene organization within MGE regions


Location: 1454673..1468093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LHK_RS06860 (LHK_01496) ssb 1454673..1455161 (-) 489 WP_012696971.1 single-stranded DNA-binding protein Machinery gene
  LHK_RS06865 (LHK_01497) - 1455161..1455772 (-) 612 WP_012696972.1 lambda exonuclease family protein -
  LHK_RS17780 (LHK_01498) bet 1455775..1456563 (-) 789 WP_012696973.1 phage recombination protein Bet -
  LHK_RS06875 (LHK_01499) - 1456604..1456789 (-) 186 WP_012696974.1 hypothetical protein -
  LHK_RS06880 (LHK_01500) - 1456786..1457100 (-) 315 WP_012696975.1 hypothetical protein -
  LHK_RS06885 (LHK_01501) - 1457097..1457348 (-) 252 WP_012696976.1 hypothetical protein -
  LHK_RS16880 (LHK_01502) - 1457345..1457503 (-) 159 WP_012696977.1 hypothetical protein -
  LHK_RS16885 (LHK_01503) - 1458326..1459027 (-) 702 WP_012696978.1 LexA family transcriptional regulator -
  LHK_RS17900 - 1459026..1459328 (+) 303 WP_081433600.1 YdaS family helix-turn-helix protein -
  LHK_RS06895 (LHK_01504) - 1459325..1459630 (+) 306 WP_012696979.1 CII family transcriptional regulator -
  LHK_RS16460 - 1459634..1459849 (+) 216 WP_143714451.1 hypothetical protein -
  LHK_RS16465 - 1459879..1460739 (+) 861 WP_143714452.1 helix-turn-helix domain-containing protein -
  LHK_RS06915 (LHK_01506) - 1460736..1462112 (+) 1377 WP_012696981.1 replicative DNA helicase -
  LHK_RS06920 (LHK_01507) - 1462109..1462537 (+) 429 WP_012696982.1 recombination protein NinB -
  LHK_RS06925 (LHK_01508) - 1462534..1462806 (+) 273 WP_012696983.1 hypothetical protein -
  LHK_RS06930 (LHK_01509) - 1463039..1463341 (+) 303 WP_228369958.1 DUF1064 domain-containing protein -
  LHK_RS17280 (LHK_01510) - 1463471..1463821 (+) 351 WP_012696985.1 hypothetical protein -
  LHK_RS06940 (LHK_01511) - 1463822..1464499 (+) 678 WP_012696986.1 terminase small subunit -
  LHK_RS17285 (LHK_01512) - 1464492..1464773 (+) 282 WP_012696987.1 hypothetical protein -
  LHK_RS06945 (LHK_01513) - 1464745..1465185 (+) 441 WP_266105370.1 hypothetical protein -
  LHK_RS06950 (LHK_01514) - 1465614..1465841 (-) 228 WP_012696989.1 hypothetical protein -
  LHK_RS16890 (LHK_01515) - 1465970..1466128 (+) 159 WP_012696990.1 hypothetical protein -
  LHK_RS06955 (LHK_01516) - 1466252..1468093 (+) 1842 WP_012696991.1 class I SAM-dependent DNA methyltransferase -

Sequence

Protein


Download         Length: 162 a.a.        Molecular weight: 18340.78 Da        Isoelectric Point: 7.8419

>NTDB_id=33751 LHK_RS06860 WP_012696971.1 1454673..1455161(-) (ssb) [Laribacter hongkongensis HLHK9]
MASVNKVILVGNLGRDPEVRYMPNGEAVCTFSIATTDSWKDKNGQKQERTEWHNIILYRRLAEIAGEYLKKGRPVYIEGR
IQSRKYTGKDGVERTAFEILATELQMLGGRVESGGSTRTERSEPPPPPRRQEPKPASNFDDMDDDIPFAPLGLQYRFGLH
CI

Nucleotide


Download         Length: 489 bp        

>NTDB_id=33751 LHK_RS06860 WP_012696971.1 1454673..1455161(-) (ssb) [Laribacter hongkongensis HLHK9]
ATGGCATCCGTCAACAAAGTCATCCTCGTCGGCAACCTCGGGCGTGACCCGGAAGTGCGCTACATGCCGAACGGTGAGGC
CGTCTGCACTTTCAGTATCGCCACCACCGACAGCTGGAAGGACAAGAACGGCCAGAAGCAGGAGCGCACCGAATGGCACA
ACATCATCCTTTATCGGCGGCTGGCCGAGATTGCCGGCGAGTATTTGAAAAAAGGCCGCCCGGTCTACATCGAGGGCCGC
ATCCAGTCGCGCAAATACACCGGCAAGGACGGTGTAGAACGCACGGCCTTCGAGATATTGGCAACCGAGCTGCAAATGCT
GGGTGGCCGGGTGGAATCGGGCGGAAGCACCCGGACAGAGCGTAGCGAGCCACCGCCACCACCGCGCCGGCAGGAGCCGA
AGCCGGCCAGCAACTTCGACGACATGGACGACGACATCCCGTTCGCGCCGCTCGGCCTGCAATACCGGTTTGGCCTGCAC
TGCATTTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(4-107)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB C1D7P5

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 Neisseria gonorrhoeae MS11

57.803

100

0.617
  ssb Neisseria meningitidis MC58

56.647

100

0.605
  ssb Vibrio cholerae strain A1552

44.633

100

0.488
  ssb Glaesserella parasuis strain SC1401

42.077

100

0.475

Multiple sequence alignment