Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbB   Type   Machinery gene
Locus tag   VNN51_RS02210 Genome accession   NZ_CP141727
Coordinates   449532..449921 (-) Length   129 a.a.
NCBI ID   WP_213432275.1    Uniprot ID   -
Organism   Lactococcus formosensis strain M20011502 FF20a2     
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 425216..449921 449532..449921 within 0


Gene organization within MGE regions


Location: 425216..449921
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VNN51_RS02050 (VNN51_02050) - 425216..425629 (-) 414 WP_279360528.1 universal stress protein -
  VNN51_RS02055 (VNN51_02055) - 425988..426392 (-) 405 WP_346349585.1 hypothetical protein -
  VNN51_RS02060 (VNN51_02060) - 426394..427227 (-) 834 WP_346349586.1 hypothetical protein -
  VNN51_RS02065 (VNN51_02065) - 427653..428456 (-) 804 WP_346349587.1 hypothetical protein -
  VNN51_RS02070 (VNN51_02070) - 429128..429670 (-) 543 WP_346349588.1 YfbU family protein -
  VNN51_RS02075 (VNN51_02075) - 429847..430170 (-) 324 WP_346349589.1 sigma-70 family RNA polymerase sigma factor -
  VNN51_RS02080 (VNN51_02080) - 430248..430955 (-) 708 WP_346349590.1 hypothetical protein -
  VNN51_RS02085 (VNN51_02085) - 430955..431287 (-) 333 WP_346349591.1 hypothetical protein -
  VNN51_RS02090 (VNN51_02090) - 431277..431780 (-) 504 WP_279369493.1 hypothetical protein -
  VNN51_RS02095 (VNN51_02095) - 431903..432040 (-) 138 WP_213432460.1 hypothetical protein -
  VNN51_RS02100 (VNN51_02100) - 432360..433802 (-) 1443 WP_346349592.1 VapE domain-containing protein -
  VNN51_RS02105 (VNN51_02105) - 433795..434373 (-) 579 WP_346349593.1 hypothetical protein -
  VNN51_RS02110 (VNN51_02110) - 434507..434776 (-) 270 WP_346349594.1 hypothetical protein -
  VNN51_RS02115 (VNN51_02115) - 434773..434925 (-) 153 WP_185767489.1 hypothetical protein -
  VNN51_RS02120 (VNN51_02120) - 435071..435478 (-) 408 WP_346349595.1 hypothetical protein -
  VNN51_RS02125 (VNN51_02125) - 435793..435984 (-) 192 WP_346349596.1 helix-turn-helix transcriptional regulator -
  VNN51_RS02130 (VNN51_02130) - 436126..436533 (+) 408 WP_346349597.1 helix-turn-helix transcriptional regulator -
  VNN51_RS02135 (VNN51_02135) - 436604..437803 (+) 1200 WP_346349598.1 site-specific integrase -
  VNN51_RS02140 (VNN51_02140) mvk 437900..438832 (-) 933 WP_017369439.1 mevalonate kinase -
  VNN51_RS02145 (VNN51_02145) - 438997..439176 (+) 180 WP_017369440.1 hypothetical protein -
  VNN51_RS02150 (VNN51_02150) - 439206..440048 (-) 843 WP_279359120.1 transporter substrate-binding domain-containing protein -
  VNN51_RS02155 (VNN51_02155) rsmI 440177..441043 (-) 867 WP_017369442.1 16S rRNA (cytidine(1402)-2'-O)-methyltransferase -
  VNN51_RS02160 (VNN51_02160) - 441040..441381 (-) 342 WP_016171014.1 DNA replication initiation control protein YabA -
  VNN51_RS02165 (VNN51_02165) - 441406..442179 (-) 774 WP_017369443.1 stage 0 sporulation family protein -
  VNN51_RS02170 (VNN51_02170) - 442192..443055 (-) 864 WP_279360530.1 DNA polymerase III subunit delta' -
  VNN51_RS02175 (VNN51_02175) tmk 443082..443711 (-) 630 WP_017369445.1 dTMP kinase -
  VNN51_RS02180 (VNN51_02180) yycF 443922..444623 (+) 702 WP_003133894.1 response regulator YycF -
  VNN51_RS02185 (VNN51_02185) - 444616..446034 (+) 1419 WP_279360532.1 ATP-binding protein -
  VNN51_RS02190 (VNN51_02190) - 446031..446843 (+) 813 WP_017369447.1 MBL fold metallo-hydrolase -
  VNN51_RS02195 (VNN51_02195) groL 446893..448518 (-) 1626 WP_003133890.1 chaperonin GroEL -
  VNN51_RS02200 (VNN51_02200) groES 448547..448828 (-) 282 WP_003133888.1 co-chaperone GroES -
  VNN51_RS02205 (VNN51_02205) - 448944..449474 (-) 531 WP_279359115.1 ClbS/DfsB family four-helix bundle protein -
  VNN51_RS02210 (VNN51_02210) ssbB 449532..449921 (-) 390 WP_213432275.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 129 a.a.        Molecular weight: 14834.07 Da        Isoelectric Point: 8.8432

>NTDB_id=919023 VNN51_RS02210 WP_213432275.1 449532..449921(-) (ssbB) [Lactococcus formosensis strain M20011502 FF20a2]
MNKMLLVGRLVADPELNKTSSGKSLLRINLAVKRRYKNASGEKDTDFISLVFWEKLAEHCTSYAKKGALLAVEGEIRTRS
YVDKHEQKRYVTEVLVKKFDLLESRATIAMRQDSIENNDLDLKEDELPF

Nucleotide


Download         Length: 390 bp        

>NTDB_id=919023 VNN51_RS02210 WP_213432275.1 449532..449921(-) (ssbB) [Lactococcus formosensis strain M20011502 FF20a2]
ATGAATAAAATGTTACTTGTTGGTCGACTCGTTGCGGACCCAGAGCTCAATAAAACATCCAGTGGAAAAAGTCTCTTGAG
GATAAATCTTGCTGTCAAAAGACGTTATAAAAATGCTTCAGGGGAAAAAGATACAGACTTTATCTCTTTGGTCTTTTGGG
AGAAGCTAGCGGAACACTGTACATCCTATGCTAAAAAAGGAGCCTTACTTGCCGTGGAGGGGGAGATACGTACCAGAAGT
TATGTAGATAAACATGAACAAAAACGTTATGTGACAGAGGTACTGGTGAAAAAATTTGATCTTTTAGAGAGTCGTGCAAC
CATCGCTATGCGACAAGATTCTATAGAAAACAATGACCTTGATTTAAAAGAGGACGAATTACCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(1-101)


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
  ssbB Lactococcus lactis subsp. cremoris KW2

56.589

100

0.566
  ssbB Streptococcus sobrinus strain NIDR 6715-7

53.077

100

0.535
  ssbB/cilA Streptococcus pneumoniae TIGR4

52.308

100

0.527
  ssbA Streptococcus mutans UA159

52.308

100

0.527
  ssbB/cilA Streptococcus mitis NCTC 12261

52.308

100

0.527
  ssbB/cilA Streptococcus pneumoniae D39

51.538

100

0.519
  ssbB/cilA Streptococcus pneumoniae Rx1

51.538

100

0.519
  ssbB/cilA Streptococcus pneumoniae R6

51.538

100

0.519
  ssbB/cilA Streptococcus mitis SK321

51.538

100

0.519
  ssb Latilactobacillus sakei subsp. sakei 23K

45.536

86.822

0.395