Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ID874_RS00040 Genome accession   NZ_CP061715
Coordinates   9651..10172 (+) Length   173 a.a.
NCBI ID   WP_193223414.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain HN9     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 4651..15172
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ID874_RS00030 (ID874_00030) gyrA 6622..9141 (+) 2520 WP_008841972.1 DNA gyrase subunit A -
  ID874_RS00035 (ID874_00035) rpsF 9327..9614 (+) 288 WP_002829317.1 30S ribosomal protein S6 -
  ID874_RS00040 (ID874_00040) ssb 9651..10172 (+) 522 WP_193223414.1 single-stranded DNA-binding protein Machinery gene
  ID874_RS00045 (ID874_00045) rpsR 10202..10438 (+) 237 WP_002829315.1 30S ribosomal protein S18 -
  ID874_RS00050 (ID874_00050) - 10651..12648 (+) 1998 WP_002829314.1 DHH family phosphoesterase -
  ID874_RS00055 (ID874_00055) rplI 12654..13106 (+) 453 WP_002830768.1 50S ribosomal protein L9 -
  ID874_RS00060 (ID874_00060) dnaB 13156..14553 (+) 1398 WP_193223415.1 replicative DNA helicase -

Sequence

Protein


Download         Length: 173 a.a.        Molecular weight: 18888.42 Da        Isoelectric Point: 4.6207

>NTDB_id=484353 ID874_RS00040 WP_193223414.1 9651..10172(+) (ssb) [Pediococcus acidilactici strain HN9]
MINRAVLVGRLTRDPELRYTSSGAAVVSFTVAVNRQFTNSQGEREADFINCVMWRKAAENFANFTRKGSLVGIDGRIQTR
SYENQQGQRIYVTEVVADNFSLLESRSASERRQENEGFNNGQSAPSQSSAGNPFDSGQANNNGAASQPNNSNPNDPFANG
GQSIDISDDDLPF

Nucleotide


Download         Length: 522 bp        

>NTDB_id=484353 ID874_RS00040 WP_193223414.1 9651..10172(+) (ssb) [Pediococcus acidilactici strain HN9]
ATGATTAATCGTGCCGTACTAGTTGGACGTTTAACAAGAGATCCTGAACTACGATATACAAGTAGTGGCGCTGCCGTAGT
TAGTTTTACCGTGGCGGTTAACCGTCAGTTTACTAACTCACAGGGTGAACGCGAAGCGGATTTCATCAACTGTGTAATGT
GGCGGAAAGCGGCGGAAAACTTCGCCAACTTCACGCGCAAAGGCTCTCTAGTAGGTATCGACGGTCGGATCCAAACCCGT
TCGTACGAAAACCAACAAGGACAACGAATATACGTTACCGAAGTTGTTGCGGATAACTTCTCACTTCTTGAATCCCGTTC
GGCTTCCGAACGCCGTCAAGAAAATGAAGGCTTCAACAACGGTCAATCTGCCCCTTCACAATCATCTGCTGGAAATCCTT
TTGACAGTGGTCAAGCGAATAACAATGGTGCTGCATCGCAGCCTAACAATTCGAACCCGAACGATCCGTTTGCAAATGGC
GGACAGTCAATTGATATTTCTGACGATGATTTACCGTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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

68.75

100

0.699
  ssbA Bacillus subtilis subsp. subtilis str. 168

59.429

100

0.601
  ssbB Bacillus subtilis subsp. subtilis str. 168

60.377

61.272

0.37